NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1105533682|dbj|BAW02502|]
View 

LuxR family transcriptional regulator [Thermus thermophilus]

Protein Classification

response regulator transcription factor( domain architecture ID 11450879)

response regulator transcription factor with a signal receiver (REC) domain and a LuxR family helix-turn-helix (HTH) domain that may be part of a two-component regulatory system; similar to Staphylococcus aureus response regulator VraR

CATH:  1.10.10.10
Gene Ontology:  GO:0000160|GO:0006355|GO:0003677
PubMed:  10966457
SCOP:  3001179

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PRK09483 super family cl35841
response regulator; Provisional
 1-204 1.27e-44

response regulator; Provisional


The actual alignment was detected with superfamily member PRK09483:

Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 147.56  E-value: 1.27e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGK--VEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:PRK09483    1 MINVLLVDDHELVRAGIRRILEDIkgIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIM 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPQGLLYRMIRSQTE-RRPGP-EVLTERELAVVRCL 156
Cdd:PRK09483   81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEpATENPfASLSERELQIMLMI 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1105533682 157 AQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHGL 204
Cdd:PRK09483  161 TKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGL 208
 
Name Accession Description Interval E-value
PRK09483 PRK09483
response regulator; Provisional
 1-204 1.27e-44

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 147.56  E-value: 1.27e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGK--VEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:PRK09483    1 MINVLLVDDHELVRAGIRRILEDIkgIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIM 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPQGLLYRMIRSQTE-RRPGP-EVLTERELAVVRCL 156
Cdd:PRK09483   81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEpATENPfASLSERELQIMLMI 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1105533682 157 AQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHGL 204
Cdd:PRK09483  161 TKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGL 208
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-118 7.31e-43

phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family response regulators; The NarL family is one of the more abundant families of DNA-binding response regulators (RRs). Members of the NarL family contain a REC domain and a helix-turn-helix (HTH) DNA-binding output domain, with a majority of members containing a LuxR-type HTH domain. They function as transcriptional regulators. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381090 [Multi-domain]  Cd Length: 117  Bit Score: 139.95  E-value: 7.31e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGK--VEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSM 81
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEpdIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-205 5.57e-42

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 138.10  E-value: 5.57e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLL--QGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALkeacpgvrlla 78
Cdd:COG2197     1 MIRVLIVDDHPLVREGLRALLeaEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  79 lsmyaepeyaerflqaggagylpkdaaeeelldavkavargefyvpqgllyrmirsqterrpgpevLTERELAVVRCLAQ 158
Cdd:COG2197    70 ------------------------------------------------------------------LTPREREVLRLLAE 83

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 1105533682 159 GCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHGLV 205
Cdd:COG2197    84 GLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-114 3.44e-32

Response regulator receiver domain; This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain.


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 112.24  E-value: 3.44e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYA 83
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1105533682  84 EPEYAERFLQAGGAGYLPKDAAEEELLDAVK 114
Cdd:pfam00072  81 DEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 142-199 7.84e-21

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 81.42  E-value: 7.84e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1105533682  142 PEVLTERELAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWA 199
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 2-119 2.40e-09

sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species. [Cellular processes, Sporulation and germination]


Pssm-ID: 131922 [Multi-domain]  Cd Length: 262  Bit Score: 55.57  E-value: 2.40e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIR--FLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE----ACPgvR 75
Cdd:TIGR02875   3 IRIVIADDNKEFCNLLKeyLAAQPDMEVVGVAHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLNEielsARP--R 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1105533682  76 LLALSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARG 119
Cdd:TIGR02875  81 VIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWG 124
transpos_IS630 NF033545
IS630 family transposase;
148-202 3.24e-04

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 40.32  E-value: 3.24e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1105533682 148 RELAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAE----------------KLGLRSRAELVRWALEH 202
Cdd:NF033545    1 RRARILLLAAEGLSITEIAERLGVSRSTVYRWLKRFNEggleglldkprpgrprKLLSEQQAELLALLLEE 71
 
Name Accession Description Interval E-value
PRK09483 PRK09483
response regulator; Provisional
 1-204 1.27e-44

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 147.56  E-value: 1.27e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGK--VEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:PRK09483    1 MINVLLVDDHELVRAGIRRILEDIkgIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIM 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPQGLLYRMIRSQTE-RRPGP-EVLTERELAVVRCL 156
Cdd:PRK09483   81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEpATENPfASLSERELQIMLMI 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1105533682 157 AQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHGL 204
Cdd:PRK09483  161 TKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGL 208
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-118 7.31e-43

phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family response regulators; The NarL family is one of the more abundant families of DNA-binding response regulators (RRs). Members of the NarL family contain a REC domain and a helix-turn-helix (HTH) DNA-binding output domain, with a majority of members containing a LuxR-type HTH domain. They function as transcriptional regulators. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381090 [Multi-domain]  Cd Length: 117  Bit Score: 139.95  E-value: 7.31e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGK--VEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSM 81
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEpdIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-205 5.57e-42

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 138.10  E-value: 5.57e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLL--QGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALkeacpgvrlla 78
Cdd:COG2197     1 MIRVLIVDDHPLVREGLRALLeaEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  79 lsmyaepeyaerflqaggagylpkdaaeeelldavkavargefyvpqgllyrmirsqterrpgpevLTERELAVVRCLAQ 158
Cdd:COG2197    70 ------------------------------------------------------------------LTPREREVLRLLAE 83

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 1105533682 159 GCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHGLV 205
Cdd:COG2197    84 GLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 3-202 2.06e-37

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 128.99  E-value: 2.06e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:PRK10651    8 TILLIDDHPMLRTGVKQLISmaPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPQGLLYRMIRSQTERRPGPEV----LTERELAVVRCL 156
Cdd:PRK10651   88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTERdvnqLTPRERDILKLI 167

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1105533682 157 AQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEH 202
Cdd:PRK10651  168 AQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQE 213
PRK15369 PRK15369
two component system response regulator;
2-204 2.12e-34

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 121.34  E-value: 2.12e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLL--QGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLAL 79
Cdd:PRK15369    4 YKILLVDDHELIINGIKNMLapYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILVL 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  80 SMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPQGLLYRMIRSQTERRPG-PEVLTERELAVVRCLAQ 158
Cdd:PRK15369   84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTnPPLLTPRERQILKLITE 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1105533682 159 GCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHGL 204
Cdd:PRK15369  164 GYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGL 209
PRK10360 PRK10360
transcriptional regulator UhpA;
1-197 6.91e-34

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 119.70  E-value: 6.91e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLL--QGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLaeaLKEACPGVRLLA 78
Cdd:PRK10360    1 MITVALIDDHLIVRSGFAQLLglEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMATIM 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPQGLLYRMirSQTERRPgpevLTERELAVVRCLAQ 158
Cdd:PRK10360   78 LSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKL--ASGRQDP----LTKRERQVAEKLAQ 151

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1105533682 159 GCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVR 197
Cdd:PRK10360  152 GMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELAR 190
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
6-199 1.21e-33

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 119.23  E-value: 1.21e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   6 LVDDHPVVRAGIRFLL-QGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYAE 84
Cdd:PRK09958    5 IIDDHPLAIAAIRNLLiKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAKND 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  85 PEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPqGLLYRMIRSQTERRPGPEVLTERELAVVRCLAQGCSYKE 164
Cdd:PRK09958   85 HFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFP-FSLNRFVGSLTSDQQKLDSLSKQEISVMRYILDGKDNND 163

                         170       180       190
                  ....*....|....*....|....*....|....*
gi 1105533682 165 IGERMGISEKTVATYRERAAEKLGLRSRAELVRWA 199
Cdd:PRK09958  164 IAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFA 198
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 4-203 4.11e-33

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443623 [Multi-domain]  Cd Length: 196  Bit Score: 117.51  E-value: 4.11e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQG---KVEVVGEAEtgkEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:COG4566     2 VYIVDDDEAVRDSLAFLLESaglRVETFASAE---AFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLT 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAV-KAVARGEFYVPQGLLYRMIRSQTERrpgpevLTERELAVVRCLAQG 159
Cdd:COG4566    79 GHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVrRALARDRARRAERARRAELRARLAS------LTPREREVLDLVVAG 152

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 1105533682 160 CSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHG 203
Cdd:COG4566   153 LSNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-114 3.44e-32

Response regulator receiver domain; This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain.


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 112.24  E-value: 3.44e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYA 83
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1105533682  84 EPEYAERFLQAGGAGYLPKDAAEEELLDAVK 114
Cdd:pfam00072  81 DEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
3-192 1.07e-29

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 109.17  E-value: 1.07e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:PRK10403    8 QVLIVDDHPLMRRGVRQLLEldPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILT 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARG-EFYVPQGLLYRMIRSQTERRPGP-EVLTERELAVVRCLAQ 158
Cdd:PRK10403   88 VSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGsKVFSERVNQYLREREMFGAEEDPfSVLTERELDVLHELAQ 167

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1105533682 159 GCSYKEIGERMGISEKTVATYRERAAEKLGLRSR 192
Cdd:PRK10403  168 GLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSR 201
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
4-205 2.41e-29

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 108.04  E-value: 2.41e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSM 81
Cdd:PRK09935    6 VIIMDTHPIIRMSIEVLLQknSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLSS 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPQGLLyRMIRSQTERRPGPE--VLTERELAVVRCLAQG 159
Cdd:PRK09935   86 KSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETL-NYIKSNKCSTNSSTdtVLSNREVTILRYLVSG 164

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1105533682 160 CSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHGLV 205
Cdd:PRK09935  165 LSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHELL 210
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 3-102 3.85e-28

Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443786 [Multi-domain]  Cd Length: 103  Bit Score: 101.77  E-value: 3.85e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGK--VEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:COG4753     1 KVLIVDDEPLIREGLKRILEWEagFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILS 80

                          90       100
                  ....*....|....*....|..
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPK 102
Cdd:COG4753    81 GYSDFEYAQEAIKLGADDYLLK 102
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 4-118 6.13e-26

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators; This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381091 [Multi-domain]  Cd Length: 121  Bit Score: 96.64  E-value: 6.13e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGK---VEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:cd17536     1 VLIVDDEPLIREGLKKLIDWEelgFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIILS 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17536    81 GYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-190 7.39e-25

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 440508 [Multi-domain]  Cd Length: 204  Bit Score: 96.18  E-value: 7.39e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGK-VEVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLAL 79
Cdd:COG0745     1 MPRILVVEDDPDIRELLADALEREgYEVD-TAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIML 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  80 SMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR---GEFYVPQGLLYRmiRSQTERRPGPEV-LTERELAVVRC 155
Cdd:COG0745    80 TARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRrraAEVLRVGDLLDL--AAREVTRDGEPVeLTPKEFRLLEL 157

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1105533682 156 LA----QGCSYKEIGERM----GISEKTVATYRERAAEKLGLR 190
Cdd:COG0745   158 LMrnpgRVVSREQLLEEVwgydYGDDRTVDVHISRLRKKLEDD 200
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 1-116 1.21e-24

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator Spo0F [Signal transduction mechanisms];


Pssm-ID: 440547 [Multi-domain]  Cd Length: 128  Bit Score: 93.38  E-value: 1.21e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGK-VEVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALK--EACPGVRLL 77
Cdd:COG0784     5 GKRILVVDDNPDNRELLRRLLERLgYEVT-TAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRalPRLPDIPII 83

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1105533682  78 ALSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAV 116
Cdd:COG0784    84 ALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRL 122
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 4-116 1.34e-24

phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of Bacillus subtilis DesR, Streptococcus pneumoniae response regulator spr1814, and similar proteins, all containing an N-terminal REC domain and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. DesR is a response regulator that, together with its cognate sensor kinase DesK, comprises a two-component regulatory system that controls membrane fluidity. Phosphorylation of the REC domain of DesR is allosterically coupled to two distinct exposed surfaces of the protein, controlling noncanonical dimerization/tetramerization, cooperative activation, and DesK binding. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381157 [Multi-domain]  Cd Length: 117  Bit Score: 93.11  E-value: 1.34e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLL--QGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSM 81
Cdd:cd19930     1 VLIAEDQEMVRGALAALLelEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTT 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAV 116
Cdd:cd19930    81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTV 115
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-118 2.61e-24

DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal transduction mechanisms];


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 93.11  E-value: 2.61e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:COG4565     3 MIRVLIVEDDPMVAELLRRYLErlPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDVIV 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:COG4565    83 ITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLE 122
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 6-102 1.41e-22

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response regulators (PRRs); Two-component systems (TCSs) involving a sensor and a response regulator are used by bacteria to adapt to changing environments. Processes regulated by two-component systems in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Response regulators (RRs) share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. Response regulators regulate transcription, post-transcription or post-translation, or have functions such as methylesterases, adenylate or diguanylate cyclase, c-di-GMP-specific phosphodiesterases, histidine kinases, serine/threonine protein kinases, and protein phosphatases, depending on their output domains. The function of some output domains are still unknown. TCSs are found in all three domains of life - bacteria, archaea, and eukaryotes, however, the presence and abundance of particular RRs vary between the lineages. Archaea encode very few RRs with DNA-binding output domains; most are stand-alone REC domains. Among eukaryotes, TCSs are found primarily in protozoa, fungi, algae, and green plants. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381085 [Multi-domain]  Cd Length: 99  Bit Score: 87.28  E-value: 1.41e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   6 LVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYAEP 85
Cdd:cd00156     2 IVDDDPAIRELLKSLLEREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKADE 81

                          90
                  ....*....|....*..
gi 1105533682  86 EYAERFLQAGGAGYLPK 102
Cdd:cd00156    82 EDAVRALELGADDYLVK 98
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-118 1.93e-22

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];


Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 93.49  E-value: 1.93e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:COG2204     2 MARILVVDDDPDIRRLLKELLERAGYEVETAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVILLT 81

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:COG2204    82 GYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALE 119
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 2-189 1.30e-21

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 87.97  E-value: 1.30e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGK--VEVVGEAETGKEALERIPKANPDVAVLDIALPD---MDGIRLAEALKEACPGVRL 76
Cdd:PRK10840    4 MNVIIADDHPIVLFGIRKSLEQIewVNVVGEFEDSTALINNLPKLDAHVLITDLSMPGdkyGDGITLIKYIKRHFPSLSI 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  77 LALSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPQGLLyRMIRSQTERRPGPEVLTERELAVVRCL 156
Cdd:PRK10840   84 IVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVS-RLLEKISAGGYGDKRLSPKESEVLRLF 162

                         170       180       190
                  ....*....|....*....|....*....|...
gi 1105533682 157 AQGCSYKEIGERMGISEKTVATYRERAAEKLGL 189
Cdd:PRK10840  163 AEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGV 195
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-118 1.32e-21

DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction mechanisms];


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 88.33  E-value: 1.32e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:COG3279     1 MMKILIVDDEPLARERLERLLEkyPDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIF 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1105533682  79 LSMYaePEYAERFLQAGGAGYLPKDAAEEELLDAV-KAVAR 118
Cdd:COG3279    81 TTAY--DEYALEAFEVNAVDYLLKPIDEERLAKALeKAKER 119
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-123 2.98e-21

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate cyclase (GGDEF) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 442920 [Multi-domain]  Cd Length: 179  Bit Score: 86.12  E-value: 2.98e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGK-VEVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE--ACPGVRLL 77
Cdd:COG3706     1 PARILVVDDDPTNRKLLRRLLEAAgYEVV-EAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRAdpRTADIPII 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1105533682  78 ALSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR---GEFYV 123
Cdd:COG3706    80 FLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVARyggEEFAI 128
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 142-199 7.84e-21

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 81.42  E-value: 7.84e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1105533682  142 PEVLTERELAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWA 199
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 134-205 1.69e-20

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell division, chromosome partitioning, Transcription];


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 81.16  E-value: 1.69e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1105533682 134 SQTERRPGPEVLTERELAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHGLV 205
Cdd:COG5905     2 MPSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLL 73
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 3-118 2.02e-20

Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains [Signal transduction mechanisms];


Pssm-ID: 442663 [Multi-domain]  Cd Length: 224  Bit Score: 85.22  E-value: 2.02e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALK--EACPGVRLLALS 80
Cdd:COG3437     8 TVLIVDDDPENLELLRQLLRTLGYDVVTAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRadPSTRDIPVIFLT 87

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:COG3437    88 ALADPEDRERALEAGADDYLTKPFDPEELLARVRNALE 125
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 2-116 3.93e-19

phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response regulator CheY contains a stand-alone REC domain. Chemotaxis is a behavior known for motile bacteria that directs their movement in response to chemical gradients. CheY is involved in transmitting sensory signals from chemoreceptors to the flagellar motors. Phosphorylated CheY interacts with the flagella switch components FliM and FliY, which causes counterclockwise rotation of the flagella, resulting in smooth swimming. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381097 [Multi-domain]  Cd Length: 117  Bit Score: 78.86  E-value: 3.93e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIR-FLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:cd17542     1 KKVLIVDDAAFMRMMLKdILTKAGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMCS 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAV 116
Cdd:cd17542    81 AMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 4-117 4.21e-19

phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate/nitrite response regulator protein NarL contains an N-terminal REC domain and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. Escherichia coli NarL activates the expression of the nitrate reductase (narGHJI) and formate dehydrogenase-N (fdnGHI) operons, and represses the transcription of the fumarate reductase (frdABCD) operon in response to a nitrate/nitrite induction signal. Phosphorylation of the NarL REC domain releases the C-terminal HTH output domain that subsequently binds specific DNA promoter sites to repress or activate gene expression. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381158 [Multi-domain]  Cd Length: 117  Bit Score: 78.93  E-value: 4.21e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSM 81
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIEldPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVA 117
Cdd:cd19931    81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAA 116
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 145-201 2.62e-18

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 74.88  E-value: 2.62e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1105533682 145 LTERELAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALE 201
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 4-113 3.07e-18

second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal transduction histidine kinase D and similar domains; Dictyostelium discoideum hybrid signal transduction histidine kinase D (DhkD) is a large protein that contains two histidine kinase (HK) and two REC domains on the intracellular side of a single pass transmembrane domain, and extracellular PAS and PAC domains that likely are involved in ligand binding. This model represents the second REC domain and similar domains. DhkD activates the cAMP phosphodiesterase RegA to ensure proper prestalk and prespore patterning, tip formation, and the vertical elongation of the mound into a finger, in Dictyostelium discoideum. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381118 [Multi-domain]  Cd Length: 112  Bit Score: 76.34  E-value: 3.07e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE--ACPGVRLLALSM 81
Cdd:cd17580     1 ILVVDDNEDAAEMLALLLELEGAEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRElpWLANTPAIALTG 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEELLDAV 113
Cdd:cd17580    81 YGQPEDRERALEAGFDAHLVKPVDPDELIELI 112
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 4-113 5.31e-18

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators similar to Arabidopsis thaliana CKI1 and Escherichia coli RcsC; This family is composed of hybrid sensor histidine kinases/response regulators that are sensor histidine kinases (HKs) fused with a REC domain, similar to the sensor histidine kinase CKI1 from Arabidopsis thaliana, which is involved in multi-step phosphorelay (MSP) signaling that mediates responses to a variety of important stimuli in plants. MSP involves a signal being transferred from HKs via histidine phosphotransfer proteins (AHP1-AHP5) to nuclear response regulators. The CKI1 REC domain specifically interacts with the downstream signaling protein AHP2, AHP3 and AHP5. The plant MSP system has evolved from the prokaryotic two-component system (TCS), which allows organisms to sense and respond to changes in environmental conditions. This family also includes bacterial hybrid sensor HKs such as Escherichia coli RcsC, which is a component of the Rcs signalling pathway that controls a variety of physiological functions like capsule synthesis, cell division, and motility. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381099 [Multi-domain]  Cd Length: 113  Bit Score: 75.97  E-value: 5.31e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGI-RFLLQGKVEVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE---ACPGVRLLAL 79
Cdd:cd17546     1 VLVVDDNPVNRKVLkKLLEKLGYEVD-VAENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIRElegGGRRTPIIAL 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1105533682  80 SMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAV 113
Cdd:cd17546    80 TANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 2-118 9.28e-18

phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes Mycobacterium tuberculosis PdtaR, also called Rv1626, and similar proteins containing a REC domain and an ANTAR (AmiR and NasR transcription antitermination regulators) RNA-binding output domain. PdtaR is a response regulator that acts at the level of transcriptional antitermination and is a member of the PdtaR/PdtaS two-component regulatory system. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381159 [Multi-domain]  Cd Length: 118  Bit Score: 75.53  E-value: 9.28e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGK-VEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLaLS 80
Cdd:cd19932     1 VRVLIAEDEALIRMDLREMLEEAgYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIAPIVL-LT 79

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVK-AVAR 118
Cdd:cd19932    80 AYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIEmAIAR 118
GerE pfam00196
Bacterial regulatory proteins, luxR family;
143-199 2.59e-17

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 72.23  E-value: 2.59e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1105533682 143 EVLTERELAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWA 199
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 2-114 3.65e-17

phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate methylesterase CheB and similar chemotaxis proteins; Methylesterase CheB is a chemotaxis response regulator with an N-terminal REC domain and a C-terminal methylesterase domain. Chemotaxis is a behavior known in motile bacteria that directs their movement in response to chemical gradients. CheB is a phosphorylation-activated response regulator involved in the reversible modification of bacterial chemotaxis receptors. It catalyzes the demethylation of specific methylglutamate residues introduced into the chemoreceptors (methyl-accepting chemotaxis proteins) by CheR. The CheB REC domain packs against the active site of the C-terminal domain and inhibits methylesterase activity by directly restricting access to the active site. Also included in this family is chemotaxis response regulator CheY, which contains a stand-alone REC domain, and an uncharacterized subfamily composed of proteins containing an N-terminal REC domain and a C-terminal CheY-P phosphatase (CheC) domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381096 [Multi-domain]  Cd Length: 125  Bit Score: 73.97  E-value: 3.65e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPgVRLLAL 79
Cdd:cd17541     1 IRVLIVDDSAVMRKLLSRILEsdPDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERP-TPVVMV 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1105533682  80 SMYAEP--EYAERFLQAGGAGYLPK---------DAAEEELLDAVK 114
Cdd:cd17541    80 SSLTEEgaEITLEALELGAVDFIAKpsggisldlEEIAEELIEKIK 125
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
1-161 3.70e-17

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 78.27  E-value: 3.70e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLL--QGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIrlaEALKE---ACPgVR 75
Cdd:PRK00742    3 KIRVLVVDDSAFMRRLISEILnsDPDIEVVGTAPDGLEAREKIKKLNPDVITLDVEMPVMDGL---DALEKimrLRP-TP 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  76 LLALSMYAEpEYAE---RFLQAGGAGYLPK---------DAAEEELLDAVKAVARGEFYVPQGllyRMIRSQTERRPGPE 143
Cdd:PRK00742   79 VVMVSSLTE-RGAEitlRALELGAVDFVTKpflgislgmDEYKEELAEKVRAAARARVRALPP---RAAAAARAAAAAPA 154

                         170
                  ....*....|....*...
gi 1105533682 144 VLTERELAVVRCLAQGCS 161
Cdd:PRK00742  155 ALAAAPLLSSKLVAIGTS 172
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-118 1.07e-16

Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding antiterminator (ANTAR) domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 442921 [Multi-domain]  Cd Length: 194  Bit Score: 74.61  E-value: 1.07e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGK-VEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPgVRLLAL 79
Cdd:COG3707     3 GLRVLVVDDEPLRRADLREGLREAgYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERP-APVILL 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1105533682  80 SMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVK-AVAR 118
Cdd:COG3707    82 TAYSDPELIERALEAGVSAYLVKPLDPEDLLPALElALAR 121
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 2-114 2.05e-15

phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; This groups includes a modulated diguanylate cyclase containing a PAS sensor domain from Desulfovibrio desulfuricans G20. Members of this group contain N-terminal REC domains and various output domains including the GGDEF, histidine kinase, and helix-turn-helix (HTH) DNA binding domains. Also included in this family is Mycobacterium tuberculosis PdtaR, a transcriptional antiterminator that contains a REC domain and an ANTAR RNA-binding output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381089 [Multi-domain]  Cd Length: 117  Bit Score: 68.97  E-value: 2.05e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGK-VEVVGEAETGKEALERIPKANPDVAVLDIALP-DMDGIRLAEALKEACPgVRLLAL 79
Cdd:cd17534     1 KKILIVEDEAIIALDLKEILESLgYEVVGIADSGEEAIELAEENKPDLILMDINLKgDMDGIEAAREIREKFD-IPVIFL 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1105533682  80 SMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVK 114
Cdd:cd17534    80 TAYSDEETLERAKETNPYGYLVKPFNERELKAAIE 114
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
37-205 3.77e-15

DNA-binding transcriptional regulator, CsgD family [Transcription];


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 70.55  E-value: 3.77e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  37 ALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAV 116
Cdd:COG2771    20 LLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLA 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682 117 ARGEFYVPQGLLYRMIRSQTERRPGPEVLTERELAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKLGLRSRAELV 196
Cdd:COG2771   100 RLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELV 179


                  ....*....
gi 1105533682 197 RWALEHGLV 205
Cdd:COG2771   180 ALALRLGLI 188
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 3-114 4.89e-15

phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus DivK is an essential response regulator that is involved in the complex phosphorelay pathways controlling both cell division and motility. It localizes cell cycle regulators to specific poles of the cell during division. DivK contains a stand-alone REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381100 [Multi-domain]  Cd Length: 115  Bit Score: 67.95  E-value: 4.89e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcPGVR---LLAL 79
Cdd:cd17548     1 KILIVEDNPLNMKLARDLLESAGYEVLEAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKED-PATRdipVIAL 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1105533682  80 SMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVK 114
Cdd:cd17548    80 TAYAMKGDREKILEAGCDGYISKPIDTREFLETVA 114
fixJ PRK09390
response regulator FixJ; Provisional
 4-203 1.71e-13

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 66.18  E-value: 1.71e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcpGVRLLALSM-- 81
Cdd:PRK09390    6 VHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGLRFGCVVTDVRMPGIDGIELLRRLKAR--GSPLPVIVMtg 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEELLDAVK-AVARGEFYVPQGLLYRMIRSQTERrpgpevLTERELAVVRCLAQGC 160
Cdd:PRK09390   84 HGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIErALAQAPEAAKSEAVAADIRARIAS------LSERERQVMDGLVAGL 157

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1105533682 161 SYKEIGERMGISEKTVATYRERAAEKLGLRSRAELVRWALEHG 203
Cdd:PRK09390  158 SNKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVRMALRAG 200
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 4-118 1.87e-13

phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The Mycobacterium tuberculosis PrrA is part of the PrrA/PrrB two-component system (TCS) that has been implicated in early intracellular multiplication and is essential for viability. Also included in this subfamily is Mycobacterium tuberculosis MprA, part of the MprAB TCS that regulates EspR, a key regulator of the ESX-1 secretion system, and is required for establishment and maintenance of persistent infection in a tissue- and stage-specific fashion. PrrA and MprA belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381142 [Multi-domain]  Cd Length: 116  Bit Score: 63.94  E-value: 1.87e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSmyA 83
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLRFEGYEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLT--A 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  84 EPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17627    79 RDSVSDRVagLDAGADDYLVKPFALEELLARVRALLR 115
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 4-69 2.26e-13

phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; Members of the LytTR/AlgR family of response regulators contain a REC domain and a unique LytTR DNA-binding output domain that lacks the helix-turn-helix motif and consists mostly of beta-strands. Transcriptional regulators with the LytTR-type output domains are involved in biosynthesis of extracellular polysaccharides, fimbriation, expression of exoproteins, including toxins, and quorum sensing. Included in this AlgR-like group of LytTR/AlgR family response regulators are Streptococcus agalactiae sensory transduction protein LytR, Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR, Bacillus subtilis sensory transduction protein LytT, and Escherichia coli transcriptional regulatory protein BtsR, which are members of two-component regulatory systems. LytR and LytT are components of regulatory systems that regulate genes involved in cell wall metabolism. AlgR positively regulates the algD gene, which codes for a GDP-mannose dehydrogenase, a key enzyme in the alginate biosynthesis pathway. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381087 [Multi-domain]  Cd Length: 118  Bit Score: 63.71  E-value: 2.26e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE 69
Cdd:cd17532     1 ALIVDDEPLAREELRYLLEehPDIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSK 68
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 6-102 5.78e-13

phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins are one of the most widespread transcriptional regulators. OmpR family members contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domain. They are involved in the control of environmental stress tolerance (such as the oxidative, osmotic and acid stress response), motility, virulence, outer membrane biogenesis and other processes. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381116 [Multi-domain]  Cd Length: 99  Bit Score: 62.04  E-value: 5.78e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   6 LVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYAEP 85
Cdd:cd17574     2 VVEDDEEIAELLSDYLEKEGYEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAKDEE 81

                          90
                  ....*....|....*..
gi 1105533682  86 EYAERFLQAGGAGYLPK 102
Cdd:cd17574    82 EDKVLGLELGADDYITK 98
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 3-102 1.48e-12

phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; Two-component systems (TCSs), consisting of a sensor and a response regulator, are used by bacteria to adapt to changing environments. Processes regulated by TCSs in bacteria include sporulation, pathogenicity, virulence, chemotaxis and membrane transport. Response regulators share the common phosphoacceptor REC domain and differ output domains such as DNA, RNA, ligand, and protein-binding, or enzymatic domain. CpdR is a stand-alone REC protein. CckA is a sensor histidine kinase containing N-terminal PAS domains and a C-terminal REC domain. CpdR and CckA are components of a regulatory phosphorelay system (composed of CckA, ChpT, CtrA and CpdR) that controls Brucella abortus cell growth, division, and intracellular survival inside mammalian host cells. CckA autophosphorylates in the presence of ATP and transfers a phosphoryl group to the conserved aspartic acid residue on its C-terminal REC domain, which is relayed to the ChpT phosphotransferase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381144 [Multi-domain]  Cd Length: 103  Bit Score: 61.36  E-value: 1.48e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANP-DVAVLDIALPDMDGIRLAEALKEACPGVRLLALSM 81
Cdd:cd18160     1 TILLADDEPSVRKFIVTTLKKAGYAVTEAESGAEALEKLQQGKDiDIVVTDIVMPEMDGIELAREARKIDPDVKILFISG 80

                          90       100
                  ....*....|....*....|.
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPK 102
Cdd:cd18160    81 GAAAAPELLSDAVGDNATLKK 101
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 2-56 2.40e-12

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 59.50  E-value: 2.40e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1105533682    2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALP 56
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 3-116 3.10e-12

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY4 and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381110 [Multi-domain]  Cd Length: 118  Bit Score: 60.78  E-value: 3.10e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE--ACPGVRLLALS 80
Cdd:cd17562     2 KILAVDDSASIRQMVSFTLRGAGYEVVEAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKlpAYKFTPILMLT 81

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAV 116
Cdd:cd17562    82 TESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 3-118 1.02e-11

phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; Mycobacterium tuberculosis PhoP (MtPhoP) is part of the PhoP/PhoR two-component system that is involved in phosphate control by stimulating expression of genes involved in scavenging, transport and mobilization of phosphate, and repressing the utilization of nitrogen sources. Also included in this subfamily is Mycobacterium tuberculosis transcriptional regulatory protein TcrX, part of the two-component regulatory system TcrY/TcrX that may be involved in virulence. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 59.29  E-value: 1.02e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMY 82
Cdd:cd17615     1 RVLVVDDEPNITELLSMALRYEGWDVETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLTAK 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  83 AEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17615    81 DSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRALLR 116
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 3-117 1.17e-11

DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443624 [Multi-domain]  Cd Length: 177  Bit Score: 60.70  E-value: 1.17e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMY 82
Cdd:COG4567     6 SLLLVDDDEAFARVLARALERRGFEVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDARIVVLTGY 85

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1105533682  83 AEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVA 117
Cdd:COG4567    86 ASIATAVEAIKLGADDYLAKPADADDLLAALERAE 120
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 3-102 2.59e-11

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and similar domains; Thermotoga maritima RR468 (encoded by gene TM0468) is the cognate response regulator (RR) of the class I histidine kinase HK853 (product of gene TM0853). HK853/RR468 comprise a two-component system (TCS) that couples environmental stimuli to adaptive responses. This subfamily also includes Fremyella diplosiphon complementary adaptation response regulator homolog RcaF, a small RR that is involved in four-step phosphorelays of the complementary chromatic adaptation (CCA) system that occurs in many cyanobacteria. Both RR468 and RcaF are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381104 [Multi-domain]  Cd Length: 121  Bit Score: 58.33  E-value: 2.59e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQ--GKVEVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE-----ACPGVR 75
Cdd:cd17552     3 RILVIDDEEDIREVVQACLEklAGWEVL-TASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQAnpetqSIPVIL 81

                          90       100
                  ....*....|....*....|....*..
gi 1105533682  76 LLALSMYAEPeyaERFLQAGGAGYLPK 102
Cdd:cd17552    82 LTAKAQPSDR---QRFASLGVAGVIAK 105
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 5-102 2.63e-11

phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar proteins; Bacillus subtilis GlnL is part of the GlnK-GlnL (formerly YcbA-YcbB) two-component system that positively regulates the expression of the glsA-glnT (formerly ybgJ-ybgH) operon in response to glutamine. It contains a REC domain and a DNA-binding output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381112 [Multi-domain]  Cd Length: 103  Bit Score: 58.05  E-value: 2.63e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   5 FLVDDHPVvragIRFLLQGKVE------VVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:cd17565     2 YIVDDDKN----IIKILSDIIEdddlgeVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIM 77

                          90       100
                  ....*....|....*....|....
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPK 102
Cdd:cd17565    78 ISQVSDKEMIGKAYQAGIEFFINK 101
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 4-102 2.82e-11

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar domains; Pseudomonas aeruginosa cyclic di-GMP phosphodiesterase PA4781 contains an N-terminal REC domain and a C-terminal catalytic HD-GYP domain, characteristics of RpfG family response regulators. PA4781 is involved in cyclic di-3',5'-GMP (c-di-GMP) hydrolysis/degradation in a two-step reaction via the linear intermediate pGpG to produce GMP. Its unphosphorylated REC domain prevents accessibility of c-di-GMP to the active site. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381147 [Multi-domain]  Cd Length: 103  Bit Score: 57.91  E-value: 2.82e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALK--EACPGVRLLALSM 81
Cdd:cd19920     1 ILIVDDVPDNLRLLSELLRAAGYRVLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKadPATRHIPVIFLTA 80

                          90       100
                  ....*....|....*....|.
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPK 102
Cdd:cd19920    81 LTDTEDKVKGFELGAVDYITK 101
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 4-118 2.86e-11

phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This subfamily contains various OmpR family response regulators including PmrA, BasR, QseB, tctD, and RssB, which are components of two-component regulatory systems (TCSs). The PmrA/PmrB TCS controls transcription of genes that are involved in lipopolysaccharide modification in the outer membrane of bacteria, increasing bacterial resistance to host-derived antimicrobial peptides. The BasS/BasR TCS functions as an iron- and zinc-sensing transcription regulator. The QseB/QseC TCS activates the flagella regulon by activating transcription of FlhDC. The RssA/RssB TCS regulates swarming behavior in Serratia marcescens. OmpR family DNA-binding response regulators contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381139 [Multi-domain]  Cd Length: 115  Bit Score: 58.27  E-value: 2.86e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSmyA 83
Cdd:cd17624     1 ILLVEDDALLGDGLKTGLRKAGYAVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILT--A 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  84 EPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17624    79 RDGVDDRVagLDAGADDYLVKPFALEELLARLRALLR 115
Spo0A COG5801
Stage 0 sporulation initiation regulator Spo0A (response regulator, REC-HTH domains) [Cell ...
 1-69 4.15e-11

Stage 0 sporulation initiation regulator Spo0A (response regulator, REC-HTH domains) [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444503 [Multi-domain]  Cd Length: 264  Bit Score: 60.20  E-value: 4.15e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1105533682   1 MIRVFLVDDHPVVRAGIR--FLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE 69
Cdd:COG5801     4 KIKVLIADDNREFCELLEeyLSSQPDMEVVGVAYNGLEALELIEEKKPDVVILDIIMPHLDGLGVLEKLRE 74
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 4-74 5.51e-11

phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and similar proteins; NtrX is part of the two-component regulatory system NtrY/NtrX that is involved in the activation of nitrogen assimilatory genes such as Gln. It is phosphorylated by the histidine kinase NtrY and interacts with sigma-54. NtrX is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. NtrC family response regulators are sigma54-dependent transcriptional activators. Also included in this subfamily is Aquifex aeolicus NtrC4. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381102 [Multi-domain]  Cd Length: 115  Bit Score: 57.51  E-value: 5.51e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1105533682   4 VFLVDDHPvvraGIRFLLQGKVE----VVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGV 74
Cdd:cd17550     1 ILIVDDEE----DIRESLSGILEdegyEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDL 71
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
3-110 1.07e-10

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 59.86  E-value: 1.07e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIR--FLLQGkVEVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:PRK11361    6 RILIVDDEDNVRRMLStaFALQG-FETH-CANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMT 83

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1105533682  81 MYAEPEYAERFLQAGGAGYL--PKDAAEEELL 110
Cdd:PRK11361   84 AYAEVETAVEALRCGAFDYVikPFDLDELNLI 115
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
103-205 1.25e-10

ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 58.18  E-value: 1.25e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682 103 DAAEEELLDAVKAVARGEFYVPQGLLYRMIRSQTErrpgpevltERELAVVRCLAQGCSYKEIGERMGISEKTVATYRER 182
Cdd:COG2909    90 EEALALLERLLALAEAAGRLLLRALALRALGDREE---------ALAALRRRLLAEGLSNKEIAERLFISVNTVKTHLRN 160

                          90       100
                  ....*....|....*....|...
gi 1105533682 183 AAEKLGLRSRAELVRWALEHGLV 205
Cdd:COG2909   161 IYRKLGVRSRTEAVARARELGLL 183
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 3-114 1.31e-10

phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone response regulator containing only a REC domain with no output/effector domain, controls sporulation in Bacillus subtilis through the exchange of a phosphoryl group. Bacillus subtilis forms spores when conditions for growth become unfavorable. The initiation of sporulation is controlled by a phosphorelay (an expanded version of the two-component system) that consists of four main components: a histidine kinase (KinA), a secondary messenger (Spo0F), a phosphotransferase (Spo0B), and a transcription factor (Spo0A). REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 56.41  E-value: 1.31e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDhpvvRAGIRFLLQGKVEVVG----EAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:cd17553     2 KILIVDD----QYGIRILLNEVFNKEGyqtfQAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVII 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVK 114
Cdd:cd17553    78 MTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVK 113
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 6-118 1.51e-10

phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a OmpR/PhoB homolog from Thermotoga maritima whose function is not yet known. This subfamily also includes Streptococcus agalactiae transcriptional regulatory protein DltR, part of the DltS/DltR two-component system (TCS), and Pseudomonas aeruginosa transcriptional activator protein PfeR, part of the PfeR/PfeS TCS, which activates expression of the ferric enterobactin receptor. The DltS/DltR TCS regulates the expression of the dlt operon, which comprises four genes (dltA, dltB, dltC, and dltD) that catalyze the incorporation of D-alanine residues into the lipoteichoic acids. Members of this subfamily belong to the OmpR/PhoB family, which comprises of two domains, an N-terminal receiver domain and a C-terminal DNA-binding winged helix-turn-helix effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381140 [Multi-domain]  Cd Length: 115  Bit Score: 56.08  E-value: 1.51e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   6 LVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYAEP 85
Cdd:cd17625     2 VVEDEKDLSEAITKHLKKEGYTVDVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGIETPVLLLTALDAV 81

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1105533682  86 EYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17625    82 EDRVKGLDLGADDYLPKPFSLAELLARIRALLR 114
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 4-115 1.64e-10

phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response regulators contain an N-terminal receiver domain (REC) and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. The Sinorhizobium meliloti two-component system FixL/FixJ regulates nitrogen fixation in response to oxygen during symbiosis. Under microaerobic conditions, the kinase FixL phosphorylates the response regulator FixJ resulting in the regulation of nitrogen fixation genes such as nifA and fixK. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 56.06  E-value: 1.64e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQG---KVEVVGEAEtgkEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:cd17537     3 VYVVDDDEAVRDSLAFLLRSvglAVKTFTSAS---AFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNIPIIFIT 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKA 115
Cdd:cd17537    80 GHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQ 114
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 2-109 1.83e-10

second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This family is composed of uncharacterized PleD-like response regulators that contain two N-terminal REC domains and a C-terminal diguanylate cyclase output domain with the characteristic GGDEF motif at the active site. Unlike PleD which contains a REC-like adaptor domain, the second REC domain of these uncharacterized GGDEF domain proteins, described in this model, contains characteristic metal-binding and active site residues. PleD response regulators are global regulators of cell metabolism in some important human pathogens. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381098 [Multi-domain]  Cd Length: 122  Bit Score: 55.99  E-value: 1.83e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIpKANPDVAVL--DIALPDMDGIRLAEALKEACPGVRL--L 77
Cdd:cd17544     1 IKVLVVDDSATSRNHLRALLRRHNFQVLEAANGQEALEVL-EQHPDIKLVitDYNMPEMDGFELVREIRKKYSRDQLaiI 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1105533682  78 ALSMYAEPEYAERFLQAGGAGYLPKDAAEEEL 109
Cdd:cd17544    80 GISASGDNALSARFIKAGANDFLTKPFLPEEF 111
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 2-116 3.11e-10

phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC domain; This subfamily is composed of uncharacterized proteins containing an N-terminal REC domain and a C-terminal CheC domain that may function as the output/effector domain of a response regulator. CheC is a CheY-P phosphatase, affecting the level of phosphorylated CheY which controls the sense of flagella rotation and determine swimming behavior of chemotactic bacteria. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381124 [Multi-domain]  Cd Length: 117  Bit Score: 55.24  E-value: 3.11e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVR-AGIRFLLQG-KVEVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLAL 79
Cdd:cd17593     1 MKVLICDDSSMARkQLARALPADwDVEIT-FAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVV 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  80 SMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAV 116
Cdd:cd17593    80 SGDVQPEAKERVLELGALAFLKKPFDPEKLAQLLEEL 116
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 3-114 6.66e-10

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and similar domains; Thermotoga maritima contains a two-component signal transduction system (TCS) composed of the ThkA sensory histidine kinase (HK) and its cognate response regulator (RR) TrrA; the specific function of the system is unknown. TCSs couple environmental stimuli to adaptive responses. TrrA is a stand-alone RR containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381106 [Multi-domain]  Cd Length: 113  Bit Score: 54.53  E-value: 6.66e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPvvraGIRFLLQGKVE----VVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:cd17554     2 KILVVDDEE----NIRELYKEELEdegyEVVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVII 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  79 LSMYaePEYAERFLQAGGAGYLPKDAAEEELLDAVK 114
Cdd:cd17554    78 CTAY--SEYKSDFSSWAADAYVVKSSDLTELKETIK 111
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 4-61 7.64e-10

phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a component of the KdpD/KdpE two-component system (TCS) and is activated when histidine kinase KdpD senses a drop in external K+ concentration or upshift in ionic osmolarity, resulting in the expression of a heterooligomeric transporter KdpFABC. In addition, the KdpD/KdpE TCS is also an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. KdpE is a member of the OmpR family of DNA-binding response regulators that contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 54.09  E-value: 7.64e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGI 61
Cdd:cd17620     1 ILVIEDEPQIRRFLRTALEAHGYRVFEAETGQEGLLEAATRKPDLIILDLGLPDMDGL 58
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 2-112 1.31e-09

phosphoacceptor receiver (REC) domain of citrate family two-component system response regulators; This family includes Lactobacillus paracasei MaeR, Escherichia coli DcuR and DpiA, Klebsiella pneumoniae CitB, as well as Bacillus DctR, MalR, and CitT. These are all response regulators of two-component systems (TCSs) from the citrate family, and are involved in the transcriptional regulation of genes associated with L-malate catabolism (MaeRK), citrate-specific fermentation (DpiAB, CitAB), plasmid inheritance (DpiAB), anaerobic fumarate respiratory system (DcuRS), and malate transport/utilization (MalKR). REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381152 [Multi-domain]  Cd Length: 118  Bit Score: 53.79  E-value: 1.31e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVV-RAGIRFLLQ-GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLAL 79
Cdd:cd19925     1 INVLIVEDDPMVaEIHRAYVEQvPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVV 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1105533682  80 SMYAEPEYAERFLQAGGAGYLPKDAAEEELLDA 112
Cdd:cd19925    81 TAANDVETVREALRLGVVDYLIKPFTFERLRQR 113
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 3-112 1.49e-09

phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; Rhodobacter sphaeroides RegA, also called response regulator PrrA, is the DNA binding regulatory protein of a redox-responsive two-component regulatory system RegB/RegA that is involved in transactivating anaerobic expression of the photosynthetic apparatus. It contains a REC domain and a DNA-binding helix-turn-helix output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381111 [Multi-domain]  Cd Length: 112  Bit Score: 53.60  E-value: 1.49e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMY 82
Cdd:cd17563     2 SLLLVDDDEVFAERLARALERRGFEVETAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVLTGY 81

                          90       100       110
                  ....*....|....*....|....*....|
gi 1105533682  83 AEPEYAERFLQAGGAGYLPKDAAEEELLDA 112
Cdd:cd17563    82 ASIATAVEAIKLGADDYLAKPADADEILAA 111
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 4-114 1.62e-09

phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase/response regulators; Typically, two-component regulatory systems (TCSs) consist of a sensor (histidine kinase) that responds to specific input(s) by modifying the output of a cognate response regulator (RR). TCSs allow organisms to sense and respond to changes in environmental conditions. Hybrid sensor histidine kinase/response regulators contain all the elements of a classical TCS in a single polypeptide chain. RRs share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381128 [Multi-domain]  Cd Length: 118  Bit Score: 53.48  E-value: 1.62e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE-----ACPGVRLLA 78
Cdd:cd17598     1 ILIVEDSPTQAEQLKHILEEQGYKVQVARNGREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKSdpdlkDIPVILLTT 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  79 LSmyaEPEYAERFLQAGGAGYLPKDAAEEELLDAVK 114
Cdd:cd17598    81 LS---DPRDVIRGLECGADNFITKPYDEKYLLSRIK 113
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 2-109 1.75e-09

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 56.78  E-value: 1.75e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcPGVR---LLA 78
Cdd:PRK11107  668 LTVMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQAKQRPFDLILMDIQMPGMDGIRACELIRQL-PHNQntpIIA 746

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPKDAAEEEL 109
Cdd:PRK11107  747 VTAHAMAGERERLLSAGMDDYLAKPIDEAML 777
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 4-118 2.07e-09

phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; Escherichia coli PhoP (EcPhoP) is part of the PhoQ/PhoP two-component system (TCS) that regulates virulence genes and plays an essential role in the response of the bacteria to the environment of their mammalian hosts, sensing several stimuli such as extracellular magnesium limitation, low pH, the presence of cationic antimicrobial peptides, and osmotic upshift. This subfamily also includes Brucella suis FeuP, part of the FeuPQ TCS that is involved in the regulation of iron uptake, and Microchaete diplosiphon RcaC, which is required for chromatic adaptation. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 53.06  E-value: 2.07e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcpGVRLLALSMYA 83
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDAGYVVDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSE--GRATPVLILTA 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  84 EPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd19934    79 RDSWQDKVegLDAGADDYLTKPFHIEELLARLRALIR 115
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 2-119 2.40e-09

sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species. [Cellular processes, Sporulation and germination]


Pssm-ID: 131922 [Multi-domain]  Cd Length: 262  Bit Score: 55.57  E-value: 2.40e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIR--FLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE----ACPgvR 75
Cdd:TIGR02875   3 IRIVIADDNKEFCNLLKeyLAAQPDMEVVGVAHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLNEielsARP--R 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1105533682  76 LLALSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARG 119
Cdd:TIGR02875  81 VIMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWG 124
PRK10100 PRK10100
transcriptional regulator CsgD;
106-202 2.88e-09

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 54.88  E-value: 2.88e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682 106 EEELLDAVKAVARGEFYVPQGLL-YRMIRSQTERRPGPE--VLTERELAVVRCLAQGCSYKEIGERMGISEKTVATYRER 182
Cdd:PRK10100  114 QERVVNGLQGVLRGECYFTQKLAsYLITHSGNYRYNSTEsaLLTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYN 193

                          90       100
                  ....*....|....*....|
gi 1105533682 183 AAEKLGLRSRAELVRWALEH 202
Cdd:PRK10100  194 LFKKIAVKNRTQAVSWANDN 213
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 3-69 4.47e-09

first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar domains; PleD contains a REC domain (D1) with the phosphorylatable aspartate, a REC-like adaptor domain (D2), and the enzymatic diguanylate cyclase (DGC) domain, also called the GGDEF domain according to a conserved sequence motif, as its output domain. The GGDEF-containing PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes D1 of PleD and similar domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381093 [Multi-domain]  Cd Length: 104  Bit Score: 52.11  E-value: 4.47e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE 69
Cdd:cd17538     1 KILVVDDEPANRELLEALLSAEGYEVLTADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKE 67
PRK11697 PRK11697
two-component system response regulator BtsR;
1-63 7.93e-09

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 53.70  E-value: 7.93e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRL 63
Cdd:PRK11697    1 MIKVLIVDDEPLAREELRELLQeeGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLEL 65
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 3-116 1.02e-08

phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The transcription factor PhoB is a component of the PhoR/PhoB two-component system, a key regulatory protein network that facilitates response to inorganic phosphate (Pi) starvation conditions by turning on the phosphate (pho) regulon whose products are involved in phosphorus uptake and metabolism. PhoB is a member of the OmpR family of DNA-binding response regulators that contains REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381133 [Multi-domain]  Cd Length: 118  Bit Score: 51.48  E-value: 1.02e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALK--EACPGVRLLALS 80
Cdd:cd17618     2 TILIVEDEPAIREMIAFNLERAGFDVVEAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKrdEMTRDIPIIMLT 81

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAV 116
Cdd:cd17618    82 ARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAV 117
PRK14084 PRK14084
DNA-binding response regulator;
2-68 2.04e-08

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 52.45  E-value: 2.04e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQ--GKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALK 68
Cdd:PRK14084    1 MKALIVDDEPLARNELTYLLNeiGGFEEINEAENVKETLEALLINQYDIIFLDINLMDESGIELAAKIQ 69
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 3-102 2.25e-08

phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; DNA-binding transcriptional regulator NtrC is also called nitrogen regulation protein NR(I) or nitrogen regulator I (NRI). It contains an N-terminal receiver (REC) domain, followed by a sigma-54 interaction domain, and a C-terminal helix-turn-helix DNA-binding domain. It is part of the two-component regulatory system NtrB/NtrC, which controls expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. DNA-binding response regulator NtrC is phosphorylated by NtrB; phosphorylation of the N-terminal REC domain activates the central sigma-54 interaction domain and leads to the transcriptional activation from promoters that require sigma(54)-containing RNA polymerase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381146 [Multi-domain]  Cd Length: 116  Bit Score: 50.35  E-value: 2.25e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHpvvrAGIRFLLQGKVEVVGEA----ETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:cd19919     2 TVWIVDDD----SSIRWVLERALAGAGLTvtsfENAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVII 77

                          90       100
                  ....*....|....*....|....
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPK 102
Cdd:cd19919    78 MTAHSDLDSAVSAYQGGAFEYLPK 101
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
2-118 2.57e-08

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 52.58  E-value: 2.57e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIR--FLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIrlaEALKE-----ACPgv 74
Cdd:PRK12555    1 MRIGIVNDSPLAVEALRraLARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGV---EATRRimaerPCP-- 75

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1105533682  75 rLLALSMYAEpEYAERFLQAGGAGYL------------PKDAAEEELLDAVKAVAR 118
Cdd:PRK12555   76 -ILIVTSLTE-RNASRVFEAMGAGALdavdtptlgigaGLEEYAAELLAKIDQIGR 129
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 2-102 3.56e-08

phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the phosphorelay system in the early stage of spore formation. It may be an element of the effector pathway responsible for the activation of sporulation genes in response to nutritional stress and may act in the with sigma factor spo0H to control the expression of some genes that are critical to the sporulation process. Spo0A contains a regulatory N-terminal REC domain and a C-terminal DNA-binding transcription activation domain as its effector/output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381109 [Multi-domain]  Cd Length: 108  Bit Score: 49.53  E-value: 3.56e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHpvvRAGIR-----FLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEAL--KEACPGV 74
Cdd:cd17561     2 IKVLIADDN---REFVQlleeyLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLrrMRLEKRP 78

                          90       100
                  ....*....|....*....|....*...
gi 1105533682  75 RLLALSMYAEPEYAERFLQAGGAGYLPK 102
Cdd:cd17561    79 KIIMLTAFGQEDITQRAVELGASYYILK 106
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 4-69 4.78e-08

phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex aeolicus and similar NtrC family response regulators; NtrC family proteins are transcriptional regulators that have REC, AAA+ ATPase/sigma-54 interaction, and DNA-binding output domains. This subfamily of NtrC proteins include Aquifex aeolicus NtrC1 and Vibrio quorum-sensing signal integrator LuxO. The N-terminal REC domain of NtrC proteins regulate the activity of the protein and its phosphorylation controls the AAA+ domain oligomerization, while the central AAA+ domain participates in nucleotide binding, hydrolysis, oligomerization, and sigma54 interaction. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381114 [Multi-domain]  Cd Length: 121  Bit Score: 49.50  E-value: 4.78e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1105533682   4 VFLVDDHPVVRAgirfLLQG-------KVEVVgeaETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE 69
Cdd:cd17572     1 VLLVEDSPSLAA----LYQEylsdegyKVTHV---ETGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQE 66
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 2-114 6.19e-08

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar domains; This family is composed of mostly uncharacterized response regulators with similarity to the REC domains of response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It contains an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. Members of this family contain a REC domain and various output domains including the cyclase homology domain (CHD) and the c-di-GMP phosphodiesterase domains, HD-GYP and EAL. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381113 [Multi-domain]  Cd Length: 118  Bit Score: 49.32  E-value: 6.19e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGI-RFLLQGKVEVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPG-VRLLaL 79
Cdd:cd17569     1 PTILLVDDEPNILKALkRLLRREGYEVL-TATSGEEALEILKQEPVDVVISDQRMPGMDGAELLKRVRERYPDtVRIL-L 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  80 SMYAEPEYAERFLQAGGA-GYLPKDAAEEELLDAVK 114
Cdd:cd17569    79 TGYADLDAAIEAINEGEIyRFLTKPWDDEELKETIR 114
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 3-102 6.82e-08

phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; Pseudomonas aeruginosa RssB is an orphan atypical response regulator containing a REC domain and a PP2C-type protein phosphatase output domain. Its function is still unknown. Escherichia RssB, which is not included in this subfamily, is a ClpX adaptor protein which alters ClpX specificity by mediating a specific interaction between ClpX and the substrates such as RpoS, an RNA polymerase sigma factor. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381107 [Multi-domain]  Cd Length: 116  Bit Score: 49.12  E-value: 6.82e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMY 82
Cdd:cd17555     2 TILVIDDDEVVRESIAAYLEDSGFQVLQAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIVVSGA 81

                          90       100
                  ....*....|....*....|
gi 1105533682  83 AEPEYAERFLQAGGAGYLPK 102
Cdd:cd17555    82 GVMSDAVEALRLGAWDYLTK 101
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 4-114 7.20e-08

phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and similar proteins; C4-dicarboxylic acid transport protein D (DctD) is part of the two-component regulatory system DctB/DctD, which regulates C4-dicarboxylate transport via regulation of expression of the dctPQM operon and dctA. It is an activator of sigma(54)-RNA polymerase holoenzyme that uses the energy released from ATP hydrolysis to stimulate the isomerization of a closed promoter complex to an open complex capable of initiating transcription. DctD is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381101 [Multi-domain]  Cd Length: 130  Bit Score: 49.41  E-value: 7.20e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYA 83
Cdd:cd17549     1 VLLVDDDADVREALQQTLELAGFRVRAFADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELDPDLPVILITGHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1105533682  84 EPEYAERFLQAGGAGYLPKDAAEEELLDAVK 114
Cdd:cd17549    81 DVPMAVEAMRAGAYDFLEKPFDPERLLDVVR 111
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 7-118 8.88e-08

phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus subtilis PhoP (BsPhoP) is part of the PhoPR two-component system that participates in a signal transduction network that controls adaptation of the bacteria to phosphate deficiency by regulating (activating or repressing) genes of the Pho regulon upon phosphorylation by PhoR. When activated, PhoPR directs expression of phosphate scavenging enzymes, lowers synthesis of the phosphate-rich wall teichoic acid (WTA) and initiates synthesis of teichuronic acid, a non-phosphate containing replacement anionic polymer. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381164 [Multi-domain]  Cd Length: 116  Bit Score: 48.81  E-value: 8.88e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   7 VDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALK--EACPGVRLLALSmyAE 84
Cdd:cd19937     3 VDDEEDIVELLKYNLEKEGYEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRsdPKTSSIPIIMLT--AK 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  85 PEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd19937    81 GEEFDKVlgLELGADDYITKPFSPRELLARVKAVLR 116
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 2-102 1.50e-07

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY3, Escherichia coli CheY, and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381150 [Multi-domain]  Cd Length: 119  Bit Score: 48.10  E-value: 1.50e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLL-QGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALK--EACPGVRLLA 78
Cdd:cd19923     1 MKVLVVDDFSTMRRIIKNLLkELGFNNVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIRadGALSHLPVLM 80

                          90       100
                  ....*....|....*....|....
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPK 102
Cdd:cd19923    81 VTAEAKKENVIAAAQAGVNNYIVK 104
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 4-116 2.21e-07

phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is part of the CckA-ChpT-CtrA phosphorelay that is conserved in alphaproteobacteria and is important in orchestrating the cell cycle, polar development, and flagellar biogenesis. CtrA is the master regulator of flagella synthesis genes and also regulates genes involved in the cell cycle, exopolysaccharide synthesis, and cyclic-di-GMP signaling. CtrA is active as a transcription factor when phosphorylated. It is a member of the OmpR family of DNA-binding response regulators, characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381132 [Multi-domain]  Cd Length: 114  Bit Score: 47.79  E-value: 2.21e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYA 83
Cdd:cd17616     1 VLLIEDDSATAQSIELMLKSEGFNVYTTDLGEEGLDLGKLYDYDIILLDLNLPDMSGYEVLRTLRLAKVKTPILILSGLA 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1105533682  84 EPEYAERFLQAGGAGYLPKDAAEEELLDAVKAV 116
Cdd:cd17616    81 DIEDKVKGLGFGADDYMTKPFHKDELVARIHAI 113
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 4-102 2.50e-07

phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This subfamily includes the REC domains of Bacillus subtilis chemotaxis protein CheV, Myxococcus xanthus gliding motility regulatory protein FrzE, and similar proteins. CheV is a hybrid protein with an N-terminal CheW-like domain and a C-terminal CheY-like REC domain. The CheV pathway is one of three systems employed by B. subtilis for sensory adaptation that contribute to chemotaxis. It is involved in the transmission of sensory signals from chemoreceptors to flagellar motors. Together with CheW, it is involved in the coupling of methyl-accepting chemoreceptors to the central two-component histidine kinase CheA. FrzE is a hybrid sensor histidine kinase/response regulator that is part of the Frz pathway that controls cell reversal frequency to support directional motility during swarming and fruiting body formation. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 47.37  E-value: 2.50e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANP---------DVAVLDIALPDMDGIRLAEALKE--ACP 72
Cdd:cd19924     1 ILVVDDSPTARKQLRDLLKNLGFEIAEAVDGEEALNKLENLAKegndlskelDLIITDIEMPKMDGYELTFELRDdpRLA 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 1105533682  73 GVRLLALSMYAEPEYAERFLQAGGAGYLPK 102
Cdd:cd19924    81 NIPVILNSSLSGEFSRARGKKVGADAYLAK 110
PRK10610 PRK10610
chemotaxis protein CheY;
2-109 3.31e-07

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 47.66  E-value: 3.31e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQG-KVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE--ACPGVRLLA 78
Cdd:PRK10610    6 LKFLVVDDFSTMRRIVRNLLKElGFNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRAdgAMSALPVLM 85

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYL--PKDAA--EEEL 109
Cdd:PRK10610   86 VTAEAKKENIIAAAQAGASGYVvkPFTAAtlEEKL 120
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 1-118 4.22e-07

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 48.65  E-value: 4.22e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPgVRLLALS 80
Cdd:PRK10529    1 MTNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPDLIILDLGLPDGDGIEFIRDLRQWSA-IPVIVLS 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK10529   80 ARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALR 117
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 4-102 5.37e-07

phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; Escherichia coli CusR is part of the CusS/CusR two-component system (TCS) that is involved in response to copper and silver. Other members of this subfamily include Escherichia coli PcoR, Pseudomonas syringae CopR, and Streptomyces coelicolor CutR, which are all transcriptional regulatory proteins and components of TCSs that regulate genes involved in copper resistance and/or metabolism. member of the subfamily is Escherichia coli HprR (hydrogen peroxide response regulator), previously called YdeW, which is part of the HprSR (or YedVW) TCS involved in stress response to hydrogen peroxide, as well as Cupriavidus metallidurans CzcR, which is part of the CzcS/CzcR TCS involved in the control of cobalt, zinc, and cadmium homeostasis. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381162 [Multi-domain]  Cd Length: 100  Bit Score: 46.28  E-value: 5.37e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVragIRFLLQGKVE---VVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:cd19935     1 ILVVEDEKKL---AEYLKKGLTEegyAVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPVLMLT 77

                          90       100
                  ....*....|....*....|..
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPK 102
Cdd:cd19935    78 ARDSVEDRVKGLDLGADDYLVK 99
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 4-95 5.55e-07

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators similar to Pseudomonas savastanoi blue-light-activated histidine kinase; Typically, two-component regulatory systems (TCSs) consist of a sensor (histidine kinase) that responds to specific input(s) by modifying the output of a cognate response regulator (RR). TCSs allow organisms to sense and respond to changes in environmental conditions. Hybrid sensor histidine kinase (HK)/response regulators contain all the elements of a classical TCS in a single polypeptide chain. Pseudomonas savastanoi blue-light-activated histidine kinase is a photosensitive HK and RR that is involved in increased bacterial virulence upon exposure to light. RRs share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381145 [Multi-domain]  Cd Length: 102  Bit Score: 46.19  E-value: 5.55e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIpKANPDVAVL--DIALPD-MDGIRLAEALKEACPGVRLLALS 80
Cdd:cd18161     1 VLVVEDDPDVRRLTAEVLEDLGYTVLEAASGDEALDLL-ESGPDIDLLvtDVIMPGgMNGSQLAEEARRRRPDLKVLLTS 79

                          90
                  ....*....|....*
gi 1105533682  81 MYAEPEYAERFLQAG 95
Cdd:cd18161    80 GYAENAIEGGDLAPG 94
PRK11466 PRK11466
hybrid sensory histidine kinase TorS; Provisional
 3-109 5.66e-07

hybrid sensory histidine kinase TorS; Provisional


Pssm-ID: 236914 [Multi-domain]  Cd Length: 914  Bit Score: 49.13  E-value: 5.66e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANP-DVAVLDIALPDMDGIRLAEALKEACPGVRLLALSM 81
Cdd:PRK11466  683 RLLLIEDNPLTQRITAEMLNTSGAQVVAVGNAAQALETLQNSEPfAAALVDFDLPDYDGITLARQLAQQYPSLVLIGFSA 762

                          90       100
                  ....*....|....*....|....*...
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEEL 109
Cdd:PRK11466  763 HVIDETLRQRTSSLFRGIIPKPVPREVL 790
PRK15347 PRK15347
two component system sensor kinase;
2-117 7.26e-07

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 48.87  E-value: 7.26e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGI---RL----AEALKEACPgv 74
Cdd:PRK15347  691 LQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQHRFDLVLMDIRMPGLDGLettQLwrddPNNLDPDCM-- 768

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1105533682  75 rLLALSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVA 117
Cdd:PRK15347  769 -IVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAA 810
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 3-106 8.02e-07

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator RpfG and similar proteins; Cyclic di-GMP phosphodiesterase response regulator RpfG, together with sensory/regulatory protein RpfC, constitute a two-component system implicated in sensing and responding to the diffusible signal factor (DSF) that is essential for cell-cell signaling. RpfC is a hybrid sensor/histidine kinase that phosphorylates and activates RpfG, which degrades cyclic di-GMP to GMP, leading to the activation of Clp, a global transcriptional regulator that regulates a large set of genes in the DSF pathway. RpfG contains a CheY-like receiver domain attached to a histidine-aspartic acid-glycine-tyrosine-proline (HD-GYP) cyclic di-GMP phosphodiesterase domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 46.28  E-value: 8.02e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQ--GKVEVVGEAEtGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE--ACPGVRLLA 78
Cdd:cd17551     2 RILIVDDNPTNLLLLEALLRsaGYLEVVSFTD-PREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRAlpGLEDVPIVM 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPK--DAAE 106
Cdd:cd17551    81 ITADTDREVRLRALEAGATDFLTKpfDPVE 110
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 4-102 8.06e-07

phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a probable response regulator of a two-component system (TCS), typically consisting a sensor and a response regulator, that functions in adaptation to changing environments. Processes regulated by TCSs in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Ycf29 contains an N-terminal REC domain and a LuxR-type helix-turn-helix DNA-binding output domain. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381154 [Multi-domain]  Cd Length: 102  Bit Score: 45.83  E-value: 8.06e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE-----ACPGVRLLA 78
Cdd:cd19927     1 ILLVDDDPGIRLAVKDYLEDQGFTVIAASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRKnadfdTIPVIFLTA 80

                          90       100
                  ....*....|....*....|....*.
gi 1105533682  79 LSMyaepeYAERFL--QAGGAGYLPK 102
Cdd:cd19927    81 KGM-----TSDRIKgyNAGCDGYLSK 101
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 4-109 1.11e-06

phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and similar domains; Type-B ARRs (Arabidopsis response regulators) are a class of MYB-type transcription factors that act as major players in the transcriptional activation of cytokinin-responsive genes. They directly regulate the expression of type-A ARR genes and other downstream target genes. Cytokinin is a plant hormone implicated in many growth and development processes including shoot organogenesis, leaf senescence, sink/source relationships, vascular development, lateral bud release, and photomorphogenic development. Cytokinin signaling involves a phosphorelay cascade by histidine kinase receptors (AHKs), histidine phosphotransfer proteins (AHPs) and downstream ARRs. ARRs are divided into two groups, type-A and -B, according to their sequence and domain structure. Type-B ARRs contain a receiver (REC) domain and a large C-terminal extension that has characteristics of an effector or output domain, with a Myb-like DNA binding domain referred to as the GARP domain. The GARP domain is a motif specific to plant transcription factors. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381121 [Multi-domain]  Cd Length: 115  Bit Score: 45.70  E-value: 1.11e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQG---KVEVVGEAETGKEALERIPKaNPDVAVLDIALPDMDGIRLAEALKEACpGVRLLALS 80
Cdd:cd17584     1 VLVVDDDPTCLAILKRMLLRcgyQVTTCTDAEEALSMLRENKD-EFDLVITDVHMPDMDGFEFLELIRLEM-DLPVIMMS 78

                          90       100
                  ....*....|....*....|....*....
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEEL 109
Cdd:cd17584    79 ADGSTSTVMKGLAHGACDYLLKPVSIEDL 107
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
2-95 2.21e-06

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 47.42  E-value: 2.21e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682    2 IRVFLVDDHPVVRagirFLLQGKVEVVG----EAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLL 77
Cdd:PRK09959   959 LSILIADDHPTNR----LLLKRQLNLLGydvdEATDGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQNSSLPIW 1034

                           90
                   ....*....|....*...
gi 1105533682   78 ALSMYAEPEYAERFLQAG 95
Cdd:PRK09959  1035 GLTANAQANEREKGLSCG 1052
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
2-102 2.78e-06

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 46.95  E-value: 2.78e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSM 81
Cdd:PRK10365    6 IDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTA 85

                          90       100
                  ....*....|....*....|.
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPK 102
Cdd:PRK10365   86 YSSVETAVEALKTGALDYLIK 106
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 2-118 2.89e-06

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 46.46  E-value: 2.89e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHpvVRAGiRFLLQGKVE---VVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLA 78
Cdd:PRK09836    1 MKLLIVEDE--KKTG-EYLTKGLTEagfVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGWDIVRMLRSANKGMPILL 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1105533682  79 LSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK09836   78 LTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLR 117
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 1-118 3.67e-06

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 46.11  E-value: 3.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALS 80
Cdd:PRK11083    3 QPTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQPPDLVILDVGLPDISGFELCRQLLAFHPALPVIFLT 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1105533682  81 myAEPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK11083   83 --ARSDEVDRLvgLEIGADDYVAKPFSPREVAARVRTILR 120
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 3-115 3.69e-06

phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is part of MtrA/MtrB (or MtrAB), a highly conserved two-component system (TCS) implicated in the regulation of cell division in the actinobacteria. In unicellular Mycobacterium tuberculosis, MtrAB coordinates DNA replication with cell division and regulates the transcription of resuscitation-promoting factor B. In filamentous Streptomyces venezuelae, it links antibiotic production to sporulation. MtrA belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 44.38  E-value: 3.69e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcPGVRLLALSMY 82
Cdd:cd17626     2 RILVVDDDAALAEMIGIVLRGEGFDPAFCGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVCRQIRAE-SGVPIVMLTAK 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1105533682  83 AEPEYAERFLQAGGAGYLPKDAAEEELLDAVKA 115
Cdd:cd17626    81 SDTVDVVLGLESGADDYVAKPFKPKELVARIRA 113
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 4-102 4.24e-06

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 46.40  E-value: 4.24e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYA 83
Cdd:PRK10923    6 VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMTAHS 85

                          90
                  ....*....|....*....
gi 1105533682  84 EPEYAERFLQAGGAGYLPK 102
Cdd:PRK10923   86 DLDAAVSAYQQGAFDYLPK 104
PRK10766 PRK10766
two-component system response regulator TorR;
3-69 4.61e-06

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 45.80  E-value: 4.61e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE 69
Cdd:PRK10766    4 HILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTRELRS 70
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 28-118 4.66e-06

phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is part of the CpxA/CpxR two-component regulatory system that mediates envelope stress responses that is key for virulence and antibiotic resistance in several Gram negative pathogens. CpxR is a transcription factor/response regulator that controls the expression of numerous genes, including those of the classical porins OmpF and OmpC. It belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381138 [Multi-domain]  Cd Length: 115  Bit Score: 43.83  E-value: 4.66e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  28 VGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcPGVRLLALSMYAEPEYAERFLQAGGAGYLPKDAAEE 107
Cdd:cd17623    25 VRAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKT-SQVPVLMLTARGDDIDRILGLELGADDYLPKPFNPR 103

                          90
                  ....*....|.
gi 1105533682 108 ELLDAVKAVAR 118
Cdd:cd17623   104 ELVARIRAILR 114
REC_ETR-like cd19933
phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and ...
 2-102 5.01e-06

phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and similar proteins; Plant ethylene receptors contain N-terminal transmembrane domains that contain an ethylene binding site and also serve in localization of the receptor to the endoplasmic reticulum or the Golgi apparatus and a C-terminal histidine kinase (HK)-like domain. There are five ethylene receptors (ETR1, ERS1, ETR2, ERS2, and EIN4) in Arabidopsis thaliana. ETR1, ETR2, and EIN4 also contain REC domains C-terminal to the HK domain. ETR1 and ERS1 belong to subfamily 1, and have functional HK domains while ETR2, ERS2, and EIN4 belong to subfamily 2, and lack the necessary residues for HK activity and may function as serine/threonine kinases. The plant hormone ethylene plays an important role in plant growth and development. It regulates seed germination, seedling growth, leaf and petal abscission, fruit ripening, organ senescence, and pathogen responses. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381160 [Multi-domain]  Cd Length: 117  Bit Score: 43.93  E-value: 5.01e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPD--VAVLDIALPDMDGIRLAEALKEACP---GVRL 76
Cdd:cd19933     1 LKVLLVDDNAVNRMVTKGLLEKLGCEVTTVSSGEECLNLLASAEHSfqLVLLDLCMPEMDGFEVALRIRKLFGrreRPLI 80

                          90       100
                  ....*....|....*....|....*.
gi 1105533682  77 LALSMYAEPEYAERFLQAGGAGYLPK 102
Cdd:cd19933    81 VALTANTDDSTREKCLSLGMNGVITK 106
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 4-118 7.52e-06

phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF appears to play an important role in cell wall integrity in a wide range of gram-positive bacteria, and may also modulate cell membrane integrity. It functions as part of a phosphotransfer system that ultimately controls the levels of competence within the bacteria. YycF belongs to the OmpR family of response regulators, which are characterized by a REC domain and a winged helix-turn-helix effector domain involved in DNA binding. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381130 [Multi-domain]  Cd Length: 115  Bit Score: 43.57  E-value: 7.52e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIrlaEALKEACPGVRLLALSMYA 83
Cdd:cd17614     1 ILVVDDEKPISDILKFNLTKEGYEVVTAYDGREALEKVEEEQPDLILLDLMLPEKDGL---EVCREVRKTSNVPIIMLTA 77

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  84 EPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17614    78 KDSEVDKVlgLELGADDYVTKPFSNRELLARVKANLR 114
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 3-61 8.31e-06

phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR from some pathogens contains an N-terminal phosphoreceiver (REC) domain and a C-terminal EAL domain that possesses c-di-GMP specific phosphodiesterase activity. The RocR REC domain is phosphorylated and modulates its EAL domain enzymatic activity, regulating the local level of c-di-GMP. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381086 [Multi-domain]  Cd Length: 123  Bit Score: 43.58  E-value: 8.31e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1105533682   3 RVFLVDDHPVVRAGIRFLL----QGKVEvvgEAETGKEALERIPKANPDVAVLDIALPDMDGI 61
Cdd:cd17530     2 RVLVLDDDPFQCMMAATILedlgPGNVD---EADDGREALVILLCNAPDIIICDLKMPDMDGI 61
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
3-118 9.16e-06

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 44.71  E-value: 9.16e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAC--PGVRLLALS 80
Cdd:PRK10161    4 RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKRESmtRDIPVVMLT 83

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1105533682  81 MYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK10161   84 ARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 3-70 1.00e-05

phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; This subfamily includes Escherichia coli TorR and ArcA, both OmpR family response regulators that mediate adaptation to changes in various respiratory growth conditions. The TorS-TorR two-component system (TCS) is responsible for the tight regulation of the torCAD operon, which encodes the trimethylamine N-oxide (TMAO) reductase respiratory system in response to anaerobic conditions and the presence of TMAO. The ArcA-ArcB TCS is involved in cell growth during anaerobiosis. ArcA is a global regulator that controls more than 30 operons involved in redox regulation (the Arc modulon). OmpR family DNA-binding response regulators are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381134 [Multi-domain]  Cd Length: 113  Bit Score: 43.14  E-value: 1.00e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEA 70
Cdd:cd17619     2 HILIVEDEPVTRATLKSYFEQEGYDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELREQ 69
PRK15479 PRK15479
transcriptional regulator TctD;
2-158 1.14e-05

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 44.33  E-value: 1.14e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcpGVRLLALSM 81
Cdd:PRK15479    1 MRLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQSEMYALAVLDINMPGMDGLEVLQRLRKR--GQTLPVLLL 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  82 YAEPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVARGEFYVPQGLL-----------YRMIRSQterrpgPEVLTER 148
Cdd:PRK15479   79 TARSAVADRVkgLNVGADDYLPKPFELEELDARLRALLRRSAGQVQEVQqlgelifhdegYFLLQGQ------PLALTPR 152

                         170
                  ....*....|
gi 1105533682 149 ELAVVRCLAQ 158
Cdd:PRK15479  153 EQALLTVLMY 162
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 4-69 1.67e-05

phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; Sinorhizobium meliloti ChvI is part of the ExoS/ChvI two-component regulatory system (TCS) that is required for nitrogen-fixing symbiosis and exopolysaccharide synthesis. ExoS/ChvI also play important roles in regulating biofilm formation, motility, nutrient utilization, and the viability of free-living bacteria. ChvI belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381163 [Multi-domain]  Cd Length: 99  Bit Score: 42.05  E-value: 1.67e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQG---KVEVVGEAETGKEALERIPkanPDVAVLDIALPDMDGIRLAEALKE 69
Cdd:cd19936     1 IALVDDDRNILTSVSMALEAegfSVETYTDGASALDGLNARP---PDLAILDIKMPRMDGMELLQRLRQ 66
PRK10841 PRK10841
two-component system sensor histidine kinase RcsC;
2-95 1.72e-05

two-component system sensor histidine kinase RcsC;


Pssm-ID: 182772 [Multi-domain]  Cd Length: 924  Bit Score: 44.58  E-value: 1.72e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRagirFLLQGKVEVVG----EAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE---ACP-- 72
Cdd:PRK10841  802 MMILVVDDHPINR----RLLADQLGSLGyqckTANDGVDALNVLSKNHIDIVLTDVNMPNMDGYRLTQRLRQlglTLPvi 877

                          90       100
                  ....*....|....*....|...
gi 1105533682  73 GVRLLALSmyaepEYAERFLQAG 95
Cdd:PRK10841  878 GVTANALA-----EEKQRCLEAG 895
pleD PRK09581
response regulator PleD; Reviewed
 3-118 2.53e-05

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 44.12  E-value: 2.53e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPvvrAGIRfLLQGKV-----EVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEA-----CP 72
Cdd:PRK09581    4 RILVVDDIP---ANVK-LLEAKLlaeyyTVL-TASSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKSDpatthIP 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1105533682  73 GVRLLALSmyaEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK09581   79 VVMVTALD---DPEDRVRGLEAGADDFLTKPINDVALFARVKSLTR 121
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 3-118 5.19e-05

phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and similar domains; This family is composed of response regulators (RRs) that are members of phytochrome-associated, light-sensing two-component signal transduction pathways such as Synechocystis sp. Rcp1, Tolypothrix sp. RcpA, and Agrobacterium tumefaciens bacteriophytochrome response regulator AtBRR. They are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. Also included in this family us Methanosaeta harundinacea methanogenesis regulatory protein FilR2, also a stand-alone RR. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381108 [Multi-domain]  Cd Length: 129  Bit Score: 41.25  E-value: 5.19e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQgKVEVVGE---AETGKEAL-------ERIPKANPDVAVLDIALPDMDGIrlaEALKE--A 70
Cdd:cd17557     1 TILLVEDNPGDAELIQEAFK-EAGVPNElhvVRDGEEALdflrgegEYADAPRPDLILLDLNMPRMDGF---EVLREikA 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1105533682  71 CPGVRLL---ALSMYAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17557    77 DPDLRRIpvvVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSLGE 127
PRK10816 PRK10816
two-component system response regulator PhoP;
2-118 5.55e-05

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 42.42  E-value: 5.55e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcpGVRLLALSM 81
Cdd:PRK10816    1 MRVLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSN--DVSLPILVL 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1105533682  82 YAEPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK10816   79 TARESWQDKVevLSAGADDYVTKPFHIEEVMARMQALMR 117
PRK11091 PRK11091
aerobic respiration control sensor protein ArcB; Provisional
 3-69 7.18e-05

aerobic respiration control sensor protein ArcB; Provisional


Pssm-ID: 236842 [Multi-domain]  Cd Length: 779  Bit Score: 43.01  E-value: 7.18e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1105533682   3 RVFLVDDHP--VVRAgiRFLLQG---KVEVvgeAETGKEALEripKANP---DVAVLDIALPDMDGIRLAEALKE 69
Cdd:PRK11091  527 NILLVEDIElnVIVA--RSVLEKlgnSVDV---AMTGKEALE---MFDPdeyDLVLLDIQLPDMTGLDIARELRE 593
REC_PFxFATGY cd17586
phosphoacceptor receiver (REC) domain of PFxFATGY motif single-domain (stand-alone) response ...
 4-69 7.41e-05

phosphoacceptor receiver (REC) domain of PFxFATGY motif single-domain (stand-alone) response regulators; This subfamily is composed of stand-alone response regulators (RRs) containing the PFxFATG[G/Y] motif; RRs with such a motif are also called ''FAT GUY'' response regulators. Included in this subfamily are Sphingomonas melonis SdrG, Sinorhizobium meliloti Sma0114, and Erythrobacter litoralis EL_LovR. SdrG is involved in the control of the general stress response. Sma0114 is part of the Sma0113/Sma0114 two-component system (TCS) that is involved in catabolite repression and polyhydroxy butyrate synthesis. EL_LovR is involved in a light-regulated TCS. PFxFATG[G/Y] RRs are typically associated with histidine-tryptophan-glutamate (HWE) histidine kinases that constitute a subclass of the larger histidine kinase superfamily characterized by an altered ATP binding site, which lacks the F-box that is normally an integral component of the ATP lid. The PFxFATG[G/Y] motif is involved in conformational changes after phosphorylation that results in the activation of the RR. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381122 [Multi-domain]  Cd Length: 111  Bit Score: 40.53  E-value: 7.41e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1105533682   4 VFLVDDHPVVRAGIR-FLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKE 69
Cdd:cd17586     1 VLVLEDEPLIAMNLEdALEDLGGKEVVTAATCAEALRSLADGPIDIAILDVNLGGETSIPVADALKR 67
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 2-118 8.16e-05

phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The GGDEF response regulator WspR is part of the Wsp system that is homologous to chemotaxis systems and also includes the membrane-bound receptor protein WspA. In response to growth on surfaces, WspR is phosphorylated by the Wsp signal transduction complex and is activated, functioning as a diguanylate cyclase (DGC) that catalyzes c-di-GMP synthesis. WspR is a hybrid response regulator-diguanylate cyclase, containing an N-terminal REC domain and a C-terminal GGDEF domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381117 [Multi-domain]  Cd Length: 128  Bit Score: 40.85  E-value: 8.16e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGE-AETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKeACPGVR---LL 77
Cdd:cd17575     1 IMVLLVDDQAIIGEAVRRALADEEDIDFHyCSDPTEAIEVASQIKPTVILQDLVMPGVDGLTLVRFFR-ANPATRdipII 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1105533682  78 ALSMYAEPEYAERFLQAGGAGYLPKdaaeeeLLDAVKAVAR 118
Cdd:cd17575    80 VLSTKEEPEVKSEAFALGANDYLVK------LPDKIELVAR 114
ompR PRK09468
osmolarity response regulator; Provisional
 3-118 9.06e-05

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 41.88  E-value: 9.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGI-RFLL-QG-KVEVVGEAETGKEALERipkANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLAL 79
Cdd:PRK09468    7 KILVVDDDMRLRALLeRYLTeQGfQVRSAANAEQMDRLLTR---ESFHLMVLDLMLPGEDGLSICRRLRSQNNPTPIIML 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1105533682  80 SmyAEPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK09468   84 T--AKGEEVDRIvgLEIGADDYLPKPFNPRELLARIRAVLR 122
PRK10693 PRK10693
two-component system response regulator RssB;
30-67 9.43e-05

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 42.29  E-value: 9.43e-05
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1105533682  30 EAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEAL 67
Cdd:PRK10693    2 LAANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHL 39
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 143-187 1.47e-04

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 38.21  E-value: 1.47e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1105533682 143 EVLTERE-LAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKL 187
Cdd:pfam08281   9 EELPPRQrEVFLLRYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
PRK15115 PRK15115
response regulator GlrR; Provisional
 3-113 2.58e-04

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 40.98  E-value: 2.58e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMY 82
Cdd:PRK15115    7 HLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIILTAH 86

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1105533682  83 AEPEYAERFLQAGGAGYLPKDAAEEELLDAV 113
Cdd:PRK15115   87 GSIPDAVAATQQGVFSFLTKPVDRDALYKAI 117
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 1-73 2.89e-04

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 40.39  E-value: 2.89e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1105533682   1 MIRVFLVDDHPVVRAGIR-FLLQGKVEVVGEAEtGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPG 73
Cdd:PRK10701    1 MNKIVFVEDDAEVGSLIAaYLAKHDIDVTVEPR-GDRAEATILREQPDLVLLDIMLPGKDGMTICRDLRPKWQG 73
PRK10643 PRK10643
two-component system response regulator PmrA;
2-118 3.20e-04

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 40.40  E-value: 3.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcpGVRLLALSM 81
Cdd:PRK10643    1 MKILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLESGHYSLVVLDLGLPDEDGLHLLRRWRQK--KYTLPVLIL 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1105533682  82 YAEPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK10643   79 TARDTLEDRVagLDVGADDYLVKPFALEELHARIRALIR 117
transpos_IS630 NF033545
IS630 family transposase;
148-202 3.24e-04

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 40.32  E-value: 3.24e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1105533682 148 RELAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAE----------------KLGLRSRAELVRWALEH 202
Cdd:NF033545    1 RRARILLLAAEGLSITEIAERLGVSRSTVYRWLKRFNEggleglldkprpgrprKLLSEQQAELLALLLEE 71
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 3-68 3.26e-04

phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; Klebsiella pneumoniae RstA (kpRstA) is part of the RstA/RstB two-component regulatory system that may play a regulatory role in virulence. It belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381137 [Multi-domain]  Cd Length: 116  Bit Score: 38.90  E-value: 3.26e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1105533682   3 RVFLVDDHPVVRAGIR-FLLQGKVEVVGEAEtGKEALERIPKANPDVAVLDIALPDMDGIRLAEALK 68
Cdd:cd17622     2 RILLVEDDPKLARLIAdFLESHGFNVVVEHR-GDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLR 67
PRK08583 PRK08583
RNA polymerase sigma factor SigB; Validated
 102-187 3.35e-04

RNA polymerase sigma factor SigB; Validated


Pssm-ID: 236306 [Multi-domain]  Cd Length: 257  Bit Score: 40.45  E-value: 3.35e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682 102 KDAAEEELLDAVKAVARGEFYVPQGLLYRMIRsqterrpgpEVLTERELAVVRC-LAQGCSYKEIGERMGISEKTVATYR 180
Cdd:PRK08583  172 SDGSTVTLLDIVGQQEDGYELTEQRMILEKIL---------PVLSDREKSIIQCtFIENLSQKETGERLGISQMHVSRLQ 242


                  ....*..
gi 1105533682 181 ERAAEKL 187
Cdd:PRK08583  243 RQAIKKL 249
REC_PhyR cd17540
phosphoacceptor receiver (REC) domain of response regulator PhyR and similar proteins; PhyR is ...
 3-57 3.39e-04

phosphoacceptor receiver (REC) domain of response regulator PhyR and similar proteins; PhyR is a hybrid stress regulator that contains an N-terminal sigma-like (SL) domain and a C-terminal REC domain. Phosphorylation of the REC domain is known to promote binding of the SL domain to an anti-sigma factor. PhyR thus functions as an anti-anti-sigma factor in its phosphorylated state. It is involved in the general stress response. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381095 [Multi-domain]  Cd Length: 117  Bit Score: 38.77  E-value: 3.39e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQG-KVEVVGEAETGKEALERIPKANPDVAVLDIALPD 57
Cdd:cd17540     2 RVLIIEDEPLIAMDLEQIVEDlGHQVVGIARTRDEAVALARRERPDLILADIQLAD 57
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 145-187 3.89e-04

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 39.59  E-value: 3.89e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1105533682 145 LTERE-LAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKL 187
Cdd:COG1595   128 LPPRQrEVLVLRYLEGLSYAEIAEILGISEGTVKSRLSRARKKL 171
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 4-69 4.18e-04

phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) PatA is necessary for proper patterning of heterocysts along filaments. PatA contains phosphoacceptor REC domain at its C-terminus and an N-terminal PATAN (PatA N-terminus) domain, which was proposed in a bioinformatics study to mediate protein-protein interactions. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Some members of this group may have an inactive REC domain, lacking canonical metal-binding and active site residues.


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 38.12  E-value: 4.18e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1105533682   4 VFLVDDHPVVRAGIRFLL-QGKVEVVGEAETGKeALERIPKANPDVAVLDIALPDMDG------IRLAEALKE 69
Cdd:cd17602     1 VACVDDRPSIQKMIEYFLeKQGFRVVVIDDPLR-ALTTLLNSKPDLILIDIDMPDLDGyelcslLRKSSALKD 72
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 4-102 4.41e-04

phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR and similar proteins; Pseudomonas aeruginosa PilR is the response regulator of the PilS/PilR two-component regulatory system (PilSR TCS) that acts in conjunction with sigma-54 to regulate the expression of type 4 pilus (T4P) major subunit PilA. In addition, the PilSR TCS regulates flagellum-dependent swimming motility and pilus-dependent twitching motility. PilR contains an N-terminal REC domain, a central sigma-54 interaction domain, and a C-terminal Fis-type helix-turn-helix DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 38.29  E-value: 4.41e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMYA 83
Cdd:cd19926     1 VLVVDDEPDIRELLEITLGRMGLDVRSARNVKEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQRLPQTPVAVITAYG 80

                          90
                  ....*....|....*....
gi 1105533682  84 EPEYAERFLQAGGAGYLPK 102
Cdd:cd19926    81 SLDTAIEALKAGAFDFLTK 99
orf27 CHL00148
Ycf27; Reviewed
 3-60 4.57e-04

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 39.70  E-value: 4.57e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1105533682   3 RVFLVDDhpvvRAGIRFLLQGKVEVVG----EAETGKEALERIPKANPDVAVLDIALPDMDG 60
Cdd:CHL00148    8 KILVVDD----EAYIRKILETRLSIIGyeviTASDGEEALKLFRKEQPDLVILDVMMPKLDG 65
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 145-187 4.60e-04

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 39.25  E-value: 4.60e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1105533682 145 LTERELAVVRCLA-QGCSYKEIGERMGISEKTVATYRERAAEKL 187
Cdd:TIGR02937 111 LPEREREVLVLRYlEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
PRK10336 PRK10336
two-component system response regulator QseB;
2-118 4.77e-04

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 39.88  E-value: 4.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQG---KVEVVGEAETGKEALERIPKanpDVAVLDIALPDMDGIRLAEALKEAcpGVRLLA 78
Cdd:PRK10336    1 MRILLIEDDMLIGDGIKTGLSKmgfSVDWFTQGRQGKEALYSAPY---DAVILDLTLPGMDGRDILREWREK--GQREPV 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1105533682  79 LSMYAEPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK10336   76 LILTARDALAERVegLRLGADDYLCKPFALIEVAARLEALMR 117
PRK11517 PRK11517
DNA-binding response regulator HprR;
2-157 4.84e-04

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 39.88  E-value: 4.84e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   2 IRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcPGVRLLALSM 81
Cdd:PRK11517    1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTA-KQTPVICLTA 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVARGefYVP-------QGLLYRMIRSQTERRPGPEVLTERELAVVR 154
Cdd:PRK11517   80 RDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQ--HHAlnstleiSGLRMDSVSQSVSRDNISITLTRKEFQLLW 157


                  ...
gi 1105533682 155 CLA 157
Cdd:PRK11517  158 LLA 160
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 3-116 7.36e-04

phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is part of the BaeSR two-component system that is involved in regulating genes that confer multidrug and metal resistance. In Salmonella, BaeSR induces AcrD and MdtABC drug efflux systems, increasing multidrug and metal resistance. In Escherichia coli, BaeR stimulates multidrug resistance via mdtABC (multidrug transporter ABC, formerly known as yegMNO) genes, which encode a resistance-nodulation-cell division (RND) drug efflux system. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 37.74  E-value: 7.36e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEAcPGVRLLALSmy 82
Cdd:cd19938     1 RILIVEDEPKLAQLLIDYLRAAGYAPTLLAHGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREIRRF-SDVPIIMVT-- 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1105533682  83 AEPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAV 116
Cdd:cd19938    78 ARVEEIDRLlgLELGADDYICKPYSPREVVARVKAI 113
REC_TrxB cd17595
phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase ...
 4-109 8.42e-04

phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase output domain; This family is composed of uncharacterized fusion proteins containing a REC domain and a thioredoxin reductase domain. Thioredoxin reductase catalyzes the reduction of thioredoxin and is thus a central component in the thioredoxin system. Fusion proteins containing REC and thioredoxin reductase domains could play an important role in the environmental regulation of the cellular dithiol-disulfide ratio. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381126 [Multi-domain]  Cd Length: 135  Bit Score: 38.09  E-value: 8.42e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHP-VVRAGIRFLLQ--GKVEVVGEAETGKEALE---RIPKANPDVAVL--DIALPDMDGIRLAEALKEACPGVR 75
Cdd:cd17595     3 ILTVDDDPqVLRAVARDLRRqyGKDYRVLRADSGAEALDalkELKLRGEAVALFlvDQRMPEMDGVEFLEKAMELFPEAK 82

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  76 LLALSMYAEPEYAERFLQAGGAGYL---PKDAAEEEL 109
Cdd:cd17595    83 RVLLTAYADTDAAIRAINDVQLDYYllkPWDPPEEKL 119
InsA COG3677
Transposase InsA [Mobilome: prophages, transposons];
150-187 9.67e-04

Transposase InsA [Mobilome: prophages, transposons];


Pssm-ID: 442893 [Multi-domain]  Cd Length: 241  Bit Score: 39.08  E-value: 9.67e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1105533682 150 LAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKL 187
Cdd:COG3677    66 LQAIRLLLNGISLRQIARVLGVSYKTVWRWLHRIREAL 103
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 128-195 1.31e-03

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 37.93  E-value: 1.31e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1105533682 128 LYRMIRSQTERRPgpevlTERELAVVRCLAQGCSYKEIGERMGISEKTVATYRERAAEKLglrsRAEL 195
Cdd:TIGR02985 103 LEEIIEEAIEKLP-----EQCREIFILSRFEGLSNKEIAEELGISVKTVEYHITKALKFL----RKEL 161
PRK06930 PRK06930
positive control sigma-like factor; Validated
 144-190 2.10e-03

positive control sigma-like factor; Validated


Pssm-ID: 180757 [Multi-domain]  Cd Length: 170  Bit Score: 37.40  E-value: 2.10e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1105533682 144 VLTERELAV-VRCLAQGCSYKEIGERMGISEKTVATYRERAAEKLGLR 190
Cdd:PRK06930  114 VLTEREKEVyLMHRGYGLSYSEIADYLNIKKSTVQSMIERAEKKIARQ 161
REC_1_GGDEF cd19921
first phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 3-118 2.41e-03

first phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This family is composed of uncharacterized PleD-like response regulators that contain two N-terminal REC domains and a C-terminal diguanylate cyclase output domain with the characteristic GGDEF motif at the active site. Unlike PleD which contains a REC-like adaptor domain, the second REC domain of these uncharacterized GGDEF domain proteins contains characteristic metal-binding and active site residues. PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes the first REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381148 [Multi-domain]  Cd Length: 115  Bit Score: 36.39  E-value: 2.41e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEV-VGEAETGKEALERIPKaNPD--VAVLDIALPDM-DGIRLAEALKEACPGVRLLA 78
Cdd:cd19921     1 KVLIVEDSKTFSKVLKHLIAQELGLeVDVAETLAEAKALLEE-GDDyfAALVDLNLPDApNGEAVDLVLEKGIPVIVLTG 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1105533682  79 LSmyaEPEYAERFLQAGGAGYLPKDAAeEELLDAVKAVAR 118
Cdd:cd19921    80 SF---DEDKRETLLSKGVVDYVLKDSR-YSYDYVVKLVRR 115
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 3-118 2.50e-03

phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; Acinetobacter baumannii BfmR is part of the BfmR/S two-component system that functions as the master regulator of biofilm initiation. BfmR confers resistance to complement-mediated bactericidal activity, independent of capsular polysaccharide, and also increases resistance to the clinically important antimicrobials meropenem and colistin, making it a potential antimicrobial target. Its inhibition would have the dual benefit of significantly decreasing in vivo survival and increasing sensitivity to selected antimicrobials. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381166 [Multi-domain]  Cd Length: 116  Bit Score: 36.58  E-value: 2.50e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLV-DDHPVVRAGIRFLLQGKVEVVGEAEtGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACpGVRLLALSM 81
Cdd:cd19939     1 RILIVeDELELARLTRDYLIKAGLEVSVFTD-GQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVREHS-HVPILMLTA 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  82 YAEPEYAERFLQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd19939    79 RTEEMDRVLGLEMGADDYLCKPFSPRELLARVRALLR 115
Sigma70_r4 cd06171
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in ...
 143-187 3.05e-03

Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplasmic stress and pathogenesis. Ec sigmaE SR4 also contacts the -35 element, but recognizes a different consensus (a 7-base-pair GGAACTT). Plant SFs recognize sigma70 type promoters and direct transcription of the major plastid RNA polymerase, plastid-encoded RNA polymerase (PEP).


Pssm-ID: 100119 [Multi-domain]  Cd Length: 55  Bit Score: 34.77  E-value: 3.05e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1105533682 143 EVLTERELAVVRcLA--QGCSYKEIGERMGISEKTVATYRERAAEKL 187
Cdd:cd06171     9 DKLPEREREVIL-LRfgEGLSYEEIAEILGISRSTVRQRLHRALKKL 54
REC_typeA_ARR cd17581
phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and ...
 4-114 3.12e-03

phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and similar proteins; Type-A response regulators of Arabidopsis (ARRs) are involved in cytokinin signaling, which involves a phosphorelay cascade by histidine kinase receptors (AHKs), histidine phosphotransfer proteins (AHPs) and downstream ARRs. Cytokinin is a plant hormone implicated in many growth and development processes including shoot organogenesis, leaf senescence, sink/source relationships, vascular development, lateral bud release, and photomorphogenic development. Type-A ARRs function downstream of and are regulated by type-B ARRs, which are a class of MYB-type transcription factors. As primary cytokinin response genes, type-A ARRs act as redundant negative feedback regulators of cytokinin signaling by inactivating the phosphorelay. ARRs are divided into two groups, type-A and -B, according to their sequence and domain structure. Type-A ARRs are similar in domain structure to CheY, in that they lack a typical output domain and only contain a stand-alone receiver (REC) domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381119 [Multi-domain]  Cd Length: 122  Bit Score: 36.19  E-value: 3.12e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   4 VFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALE----RIPKANPDVAVLDIAL-------PDMDGIRLAEALKEACP 72
Cdd:cd17581     1 VLAVDDSLVDRKVIERLLRISSCRVTAVDSGKRALEflglEDEEDSSNFNEPKVNMiitdycmPGMTGYDLLKKVKESSA 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1105533682  73 GVRLLALSMYAE--PEYAERFLQAGgagylpkdaAEEELLDAVK 114
Cdd:cd17581    81 LKEIPVVIMSSEniPTRISRCLEEG---------AEDFLLKPVK 115
PRK13557 PRK13557
histidine kinase; Provisional
 3-84 4.10e-03

histidine kinase; Provisional


Pssm-ID: 237425 [Multi-domain]  Cd Length: 540  Bit Score: 37.34  E-value: 4.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERI-PKANPDVAVLDIALP-DMDGIRLAEALKEACPGVRLLALS 80
Cdd:PRK13557  417 TILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILdSHPEVDLLFTDLIMPgGMNGVMLAREARRRQPKIKVLLTT 496


                  ....
gi 1105533682  81 MYAE 84
Cdd:PRK13557  497 GYAE 500
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
1-118 6.63e-03

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 36.32  E-value: 6.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   1 MIRVFLVDDHPVVRAGIRFLLQGKVEVVGEAETGKEALERIpKANPDVAVLDIALPDMDGIrlaEALKEACPGVRLLALS 80
Cdd:PRK10955    1 MNKILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLL-DDSIDLLLLDVMMPKKNGI---DTLKELRQTHQTPVIM 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1105533682  81 MYAEPEYAERF--LQAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:PRK10955   77 LTARGSELDRVlgLELGADDYLPKPFNDRELVARIRAILR 116
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 3-118 6.85e-03

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of this subfamily are response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It belongs to the nitrogen regulatory protein C (NtrC) family of response regulators, which activate transcription by RNA polymerase (RNAP) in response to a change in the environment. HupR is an unusual member of this family as it activates transcription when unphosphorylated, and transcription is inhibited by phosphorylation. Proteins in this subfamily contain an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381127 [Multi-domain]  Cd Length: 133  Bit Score: 35.42  E-value: 6.85e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1105533682   3 RVFLVDDHPVVRAGIRFLLQGKVEVVgEAETGKEALERIPKANPDVAVLDIALPDMDGIRLAEALKEACPGVRLLALSMY 82
Cdd:cd17596     2 TILVVDDEVRSLEALRRTLEEDFDVL-TAASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVRERWPEVVRIIISGY 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1105533682  83 AEPEYAERFL-QAGGAGYLPKDAAEEELLDAVKAVAR 118
Cdd:cd17596    81 TDSEDIIAGInEAGIYQYLTKPWHPDQLLLTVRNAAR 117
PRK08295 PRK08295
RNA polymerase sporulation sigma factor SigH;
143-176 9.69e-03

RNA polymerase sporulation sigma factor SigH;


Pssm-ID: 181361 [Multi-domain]  Cd Length: 208  Bit Score: 35.65  E-value: 9.69e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1105533682 143 EVLTERELAVVRCLAQGCSYKEIGERMGISEKTV 176
Cdd:PRK08295  154 ELLSELEKEVLELYLDGKSYQEIAEELNRHVKSI 187
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH