NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|499386609|ref|WP_011074076|]
View 

response regulator transcription factor [Shewanella oneidensis]

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
PRK10840 super family cl32589
transcriptional regulator RcsB; Provisional
 5-205 4.89e-49

transcriptional regulator RcsB; Provisional


The actual alignment was detected with superfamily member PRK10840:

Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 159.23  E-value: 4.89e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQpSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNDDNVDGMAMIKQLRRKYPNLPII 84
Cdd:PRK10840   6 VIIADDHPIVLFGIRKSLEQIE-WVNVVGEFEDSTALINNLPKLDAHVLITDLSMPGDKYGDGITLIKYIKRHFPSLSII 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIGETVHELLNEQGINQYAiPVELSLKEIEVVRLLA 164
Cdd:PRK10840  85 VLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVSRLLEKISAGGYG-DKRLSPKESEVLRLFA 163

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 499386609 165 NGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHY 205
Cdd:PRK10840 164 EGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNY 204
 
Name Accession Description Interval E-value
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 5-205 4.89e-49

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 159.23  E-value: 4.89e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQpSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNDDNVDGMAMIKQLRRKYPNLPII 84
Cdd:PRK10840   6 VIIADDHPIVLFGIRKSLEQIE-WVNVVGEFEDSTALINNLPKLDAHVLITDLSMPGDKYGDGITLIKYIKRHFPSLSII 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIGETVHELLNEQGINQYAiPVELSLKEIEVVRLLA 164
Cdd:PRK10840  85 VLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVSRLLEKISAGGYG-DKRLSPKESEVLRLFA 163

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 499386609 165 NGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHY 205
Cdd:PRK10840 164 EGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNY 204
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 5-124 1.13e-36

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: 124.16  E-value: 1.13e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMaEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPII 84
Cdd:cd17535    1 VLIVDDHPLVREGLRRLL-ESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPG---MDGIEALRRLRRRYPDLKVI 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:cd17535   77 VLTAHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 4-211 3.38e-24

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: 92.65  E-value: 3.38e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMaEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLrrkypnlpi 83
Cdd:COG2197    3 RVLIVDDHPLVREGLRALL-EAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPG---MDGLEALRRL--------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  84 ivltqvhnlgvlqallqigiqglllkksviaelektvkkvllgsvyigetvhellneqginqyaipveLSLKEIEVVRLL 163
Cdd:COG2197   70 --------------------------------------------------------------------LTPREREVLRLL 81

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 499386609 164 ANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQGL 211
Cdd:COG2197   82 AEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGL 129
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-121 9.25e-20

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: 80.66  E-value: 9.25e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609    5 IILADDHPIILTGVRSLMAEMQPscdIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPII 84
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGY---VVAEADDGKEALELLKEERPDLILLDINMPG---MDGLELLKRIRRRDPTTPVI 74

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 499386609   85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVK 121
Cdd:pfam00072  75 ILTAHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 149-206 1.74e-16

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 70.63  E-value: 1.74e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 499386609   149 PVELSLKEIEVVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYA 206
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
 
Name Accession Description Interval E-value
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 5-205 4.89e-49

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 159.23  E-value: 4.89e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQpSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNDDNVDGMAMIKQLRRKYPNLPII 84
Cdd:PRK10840   6 VIIADDHPIVLFGIRKSLEQIE-WVNVVGEFEDSTALINNLPKLDAHVLITDLSMPGDKYGDGITLIKYIKRHFPSLSII 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIGETVHELLNEQGINQYAiPVELSLKEIEVVRLLA 164
Cdd:PRK10840  85 VLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVSRLLEKISAGGYG-DKRLSPKESEVLRLFA 163

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 499386609 165 NGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHY 205
Cdd:PRK10840 164 EGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNY 204
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 5-124 1.13e-36

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: 124.16  E-value: 1.13e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMaEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPII 84
Cdd:cd17535    1 VLIVDDHPLVREGLRRLL-ESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPG---MDGIEALRRLRRRYPDLKVI 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:cd17535   77 VLTAHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116
PRK15369 PRK15369
two component system response regulator;
1-211 8.15e-30

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 109.78  E-value: 8.15e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   1 MAFKIILADDHPIILTGVRSLMAEmQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPN 80
Cdd:PRK15369   2 KNYKILLVDDHELIINGIKNMLAP-YPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPG---MNGLDVIPQLHQRWPA 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  81 LPIIVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIG-----ETVHELLNEQGINqyaiPVELSLK 155
Cdd:PRK15369  78 MNILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDpalnrEAILALLNADDTN----PPLLTPR 153

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 499386609 156 EIEVVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQGL 211
Cdd:PRK15369 154 ERQILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGL 209
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 4-211 3.38e-24

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: 92.65  E-value: 3.38e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMaEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLrrkypnlpi 83
Cdd:COG2197    3 RVLIVDDHPLVREGLRALL-EAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPG---MDGLEALRRL--------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  84 ivltqvhnlgvlqallqigiqglllkksviaelektvkkvllgsvyigetvhellneqginqyaipveLSLKEIEVVRLL 163
Cdd:COG2197   70 --------------------------------------------------------------------LTPREREVLRLL 81

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 499386609 164 ANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQGL 211
Cdd:COG2197   82 AEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGL 129
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 5-123 1.17e-20

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: 83.16  E-value: 1.17e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNLPII 84
Cdd:cd17536    1 VLIVDDEPLIREGLKKLIDWEELGFEVVGEAENGEEALELIEEHKPDIVITDIRMP---GMDGLELIEKIRELYPDIKII 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 499386609  85 VLTqvhnlG------VLQAlLQIGIQGLLLKKSVIAELEKTVKKV 123
Cdd:cd17536   78 ILS-----GyddfeyAQKA-IRLGVVDYLLKPVDEEELEEALEKA 116
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-121 9.25e-20

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: 80.66  E-value: 9.25e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609    5 IILADDHPIILTGVRSLMAEMQPscdIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPII 84
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGY---VVAEADDGKEALELLKEERPDLILLDINMPG---MDGLELLKRIRRRDPTTPVI 74

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 499386609   85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVK 121
Cdd:pfam00072  75 ILTAHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
PRK10360 PRK10360
transcriptional regulator UhpA;
4-204 1.71e-19

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 82.33  E-value: 1.71e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAeMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLrrkyPNLPI 83
Cdd:PRK10360   3 TVALIDDHLIVRSGFAQLLG-LEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPD---ISGLELLSQL----PKGMA 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  84 IVLTQVHNL-GVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIG-ETVHELL-NEQGinqyaipvELSLKEIEVV 160
Cdd:PRK10360  75 TIMLSVHDSpALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTpDIAIKLAsGRQD--------PLTKRERQVA 146

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 499386609 161 RLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFH 204
Cdd:PRK10360 147 EKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELAR 190
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 4-109 9.99e-19

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: 77.51  E-value: 9.99e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMQPsCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPI 83
Cdd:COG4753    1 KVLIVDDEPLIREGLKRILEWEAG-FEVVGEAENGEEALELLEEHKPDLVITDINMPG---MDGLELLEAIRELDPDTKI 76

                         90       100
                 ....*....|....*....|....*.
gi 499386609  84 IVLTQVHNLGVLQALLQIGIQGLLLK 109
Cdd:COG4753   77 IILSGYSDFEYAQEAIKLGADDYLLK 102
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
1-198 3.08e-18

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 79.51  E-value: 3.08e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   1 MAFKIILADDHPIILTGVRSLMaEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMpndDNVDGMAMIKQLRRKYPN 80
Cdd:PRK10403   5 TPFQVLIVDDHPLMRRGVRQLL-ELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNM---KGMSGLDTLNALRRDGVT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  81 LPIIVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIGETVHELLNE-QGINQYAIPVE-LSLKEIE 158
Cdd:PRK10403  81 AQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLRErEMFGAEEDPFSvLTERELD 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 499386609 159 VVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKS 198
Cdd:PRK10403 161 VLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRS 200
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 5-212 6.10e-18

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 78.53  E-value: 6.10e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMaEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNLPII 84
Cdd:PRK10651   9 ILLIDDHPMLRTGVKQLI-SMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMP---GMNGLETLDKLREKSLSGRIV 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIGETVHELL----------NEQGINQyaipveLSL 154
Cdd:PRK10651  85 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLaaslranratTERDVNQ------LTP 158

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 499386609 155 KEIEVVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQGLF 212
Cdd:PRK10651 159 RERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
PRK09483 PRK09483
response regulator; Provisional
 5-212 1.07e-17

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 77.84  E-value: 1.07e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQpSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPII 84
Cdd:PRK09483   4 VLLVDDHELVRAGIRRILEDIK-GIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPG---IGGLEATRKILRYTPDVKII 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  85 VLTqVHNLGVLQA-LLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIGEtvhELLNEQGINQYAIPVE-----LSLKEIE 158
Cdd:PRK09483  80 MLT-VHTENPLPAkVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIAS---DIAQQMALSQIEPATEnpfasLSERELQ 155

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 499386609 159 VVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQGLF 212
Cdd:PRK09483 156 IMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGLL 209
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
6-211 6.97e-17

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 75.70  E-value: 6.97e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   6 ILADDHPIILTGVRSLMaeMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIV 85
Cdd:PRK09958   4 IIIDDHPLAIAAIRNLL--IKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPG---VNGIQVLETLRKRQYSGIIII 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  86 LTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYI-----GETVHELLNEQGINQyaipveLSLKEIEVV 160
Cdd:PRK09958  79 VSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFpfslnRFVGSLTSDQQKLDS------LSKQEISVM 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 499386609 161 RLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQGL 211
Cdd:PRK09958 153 RYILDGKDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQRNKI 203
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
5-211 9.49e-17

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 75.30  E-value: 9.49e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMaEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPII 84
Cdd:PRK09935   6 VIIMDTHPIIRMSIEVLL-QKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPG---TDGFTFLKRIKQIQSTVKVL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLG-SVYIGETVHELLNEQGINQYAIPVELSLKEIEVVRLL 163
Cdd:PRK09935  82 FLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGyTFFPSETLNYIKSNKCSTNSSTDTVLSNREVTILRYL 161

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 499386609 164 ANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQGL 211
Cdd:PRK09935 162 VSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHEL 209
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 152-208 9.93e-17

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: 71.03  E-value: 9.93e-17
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 499386609 152 LSLKEIEVVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQ 208
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 149-206 1.74e-16

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 70.63  E-value: 1.74e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 499386609   149 PVELSLKEIEVVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYA 206
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 5-124 7.11e-16

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: 70.76  E-value: 7.11e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMaEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNLPII 84
Cdd:cd19930    1 VLIAEDQEMVRGALAALL-ELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMP---GRTGLEVAAELREELPDTKVL 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:cd19930   77 IVTTFGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVH 116
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-124 1.85e-15

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 70.00  E-value: 1.85e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   1 MAFKIILADDHPIILTGVRSLMAEMqPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPN 80
Cdd:COG4565    2 KMIRVLIVEDDPMVAELLRRYLERL-PGFEVVGVASSGEEALALLAEHRPDLILLDIYLPD---GDGLELLRELRARGPD 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 499386609  81 LPIIVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:COG4565   78 VDVIVITAARDPETVREALRAGVVDYLIKPFTFERLREALERYL 121
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 4-124 1.10e-14

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: 71.53  E-value: 1.10e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMQPScdiVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPI 83
Cdd:COG2204    4 RILVVDDDPDIRRLLKELLERAGYE---VETAASGEEALALLREEPPDLVLLDLRMPG---MDGLELLRELRALDPDLPV 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 499386609  84 IVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:COG2204   78 ILLTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERAL 118
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 4-124 2.06e-14

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: 67.18  E-value: 2.06e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMQPScdiVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRR--KYPNL 81
Cdd:COG0784    7 RILVVDDNPDNRELLRRLLERLGYE---VTTAEDGAEALELLRAGPPDLILLDINMP---GMDGLELLRRIRAlpRLPDI 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 499386609  82 PIIVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:COG0784   81 PIIALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLL 123
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 7-109 5.41e-14

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: 64.94  E-value: 5.41e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   7 LADDHPIILTGVRSLMAEMQpscDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIVL 86
Cdd:cd00156    2 IVDDDPAIRELLKSLLEREG---YEVDTAADGEEALELLREERPDLVLLDLMMPG---MDGLELLRKLRELPPDIPVIVL 75

                         90       100
                 ....*....|....*....|...
gi 499386609  87 TQVHNLGVLQALLQIGIQGLLLK 109
Cdd:cd00156   76 TAKADEEDAVRALELGADDYLVK 98
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
135-212 1.22e-13

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 66.70  E-value: 1.22e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 499386609 135 HELLNEQGINQYAIPVELSLKEIEVVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQGLF 212
Cdd:COG2771  111 AALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGLI 188
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 54-206 5.38e-13

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 65.15  E-value: 5.38e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  54 ITDFSMPNDDNVDGMAMIKQLRRKYPNLPIIVLTQVHNLGVL-QALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIGE 132
Cdd:PRK11475  42 IFSLSAMRSERREGLSCLTELAIKFPRMRRLVIADDDIEARLiGSLSPSPLDGVLSKASTLEILQQELFLSLNGVRQATD 121

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 499386609 133 TVHellNEQGINQYAIpveLSLKEIEVVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYA 206
Cdd:PRK11475 122 RLN---NQWYINQSRM---LSPTEREILRFMSRGYSMPQIAEQLERNIKTIRAHKFNVMSKLGVSSDAGLLDAA 189
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 4-109 6.84e-12

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: 61.46  E-value: 6.84e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMQpscDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRR--KYPNL 81
Cdd:COG3706    3 RILVVDDDPTNRKLLRRLLEAAG---YEVVEAADGEEALELLQEHRPDLILLDLEMP---DMDGLELCRRLRAdpRTADI 76

                         90       100
                 ....*....|....*....|....*...
gi 499386609  82 PIIVLTQVHNLGVLQALLQIGIQGLLLK 109
Cdd:COG3706   77 PIIFLTALDDEEDRARALEAGADDYLTK 104
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-124 9.67e-12

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: 61.72  E-value: 9.67e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   1 MAFKIILADDHPIILTGVRSLMAEMQpsCDIVaEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYP- 79
Cdd:COG3437    5 QAPTVLIVDDDPENLELLRQLLRTLG--YDVV-TAESGEEALELLLEAPPDLILLDVRMP---GMDGFELLRLLRADPSt 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 499386609  80 -NLPIIVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:COG3437   79 rDIPVIFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNAL 124
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-109 1.05e-11

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: 61.13  E-value: 1.05e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   1 MAFKIILADDHPIILTGVRSLMAEMqpSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNDDNVDGMAMIKQLRRKypn 80
Cdd:COG3707    2 RGLRVLVVDDEPLRRADLREGLREA--GYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERPA--- 76

                         90       100
                 ....*....|....*....|....*....
gi 499386609  81 lPIIVLTQVHNLGVLQALLQIGIQGLLLK 109
Cdd:COG3707   77 -PVILLTAYSDPELIERALEAGVSAYLVK 104
GerE pfam00196
Bacterial regulatory proteins, luxR family;
152-206 3.58e-11

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 56.44  E-value: 3.58e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 499386609  152 LSLKEIEVVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYA 206
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 4-164 4.00e-11

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: 59.97  E-value: 4.00e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMQPSCDivaEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPI 83
Cdd:COG0745    3 RILVVEDDPDIRELLADALEREGYEVD---TAADGEEALELLEEERPDLILLDLMLPG---MDGLEVCRRLRARPSDIPI 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  84 IVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVLLGSVYIGETVHELLNEQG--INQYAIPVELSLKEIEVVR 161
Cdd:COG0745   77 IMLTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAAEVLRVGDLLDLAAreVTRDGEPVELTPKEFRLLE 156


                 ...
gi 499386609 162 LLA 164
Cdd:COG0745  157 LLM 159
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 4-102 6.33e-11

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: 57.45  E-value: 6.33e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSlMAEMQPSCDIVAEANNVSEL-WrtLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPN-- 80
Cdd:cd17551    2 RILIVDDNPTNLLLLEA-LLRSAGYLEVVSFTDPREALaW--CRENPPDLILLDYMMP---GMDGLEFIRRLRALPGLed 75

                         90       100
                 ....*....|....*....|..
gi 499386609  81 LPIIVLTQVHNLGVLQALLQIG 102
Cdd:cd17551   76 VPIVMITADTDREVRLRALEAG 97
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 4-87 1.19e-10

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 59.06  E-value: 1.19e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMqPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNLPI 83
Cdd:COG3279    3 KILIVDDEPLARERLERLLEKY-PDLEVVGEASNGEEALELLEEHKPDLVFLDIQMP---GLDGFELARQLRELDPPPPI 78


                 ....
gi 499386609  84 IVLT 87
Cdd:COG3279   79 IFTT 82
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 5-92 1.76e-09

phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C (NtrC) 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 NtrC, also called nitrogen regulator I (NRI), from Rhodobacter capsulatus, Azospirillum brasilense, and Azorhizobium caulinodans. NtrC is part of the NtrB/NtrC two-component system that controls the expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. 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: 381155 [Multi-domain]  Cd Length: 100  Bit Score: 53.28  E-value: 1.76e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMqpSCDIVAEANnVSELWRTLEQHECDLLITDFSMPNDDNVDGMAMIKQLRrkyPNLPII 84
Cdd:cd19928    1 ILVADDDRAIRTVLTQALGRA--GYEVRTTGN-AATLWRWVEEGEGDLVITDVVMPDENGLDLIPRIKKAR---PDLPII 74


                 ....*...
gi 499386609  85 VLTQVHNL 92
Cdd:cd19928   75 VMSAQNTL 82
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 5-124 6.87e-09

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: 51.96  E-value: 6.87e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMaEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNLPII 84
Cdd:cd19931    1 VLLIDDHPLLRKGIKQLI-ELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMK---GMSGLDTLKALREEGVSARIV 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:cd19931   77 ILTVSDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAA 116
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 5-87 1.14e-08

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: 50.84  E-value: 1.14e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPScdiVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRK--YPNLP 82
Cdd:cd19927    1 ILLVDDDPGIRLAVKDYLEDQGFT---VIAASNGLEALDLLNQYIPDLIISDIIMP---GVDGYSLLGKLRKNadFDTIP 74


                 ....*
gi 499386609  83 IIVLT 87
Cdd:cd19927   75 VIFLT 79
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 32-84 1.56e-08

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: 50.98  E-value: 1.56e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 499386609  32 VAEANNVSELWRTLEQH-ECDLLITDFSMPNddnVDGMAMIKQLRRKYP--NLPII 84
Cdd:cd17544   27 VLEAANGQEALEVLEQHpDIKLVITDYNMPE---MDGFELVREIRKKYSrdQLAII 79
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 5-109 2.37e-08

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: 50.16  E-value: 2.37e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPSCDIvaeANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLR---RKYPNL 81
Cdd:cd17546    1 VLVVDDNPVNRKVLKKLLEKLGYEVDV---AENGQEALELLKEEPFDLVLMDLQMP---VMDGLEATRRIReleGGGRRT 74

                         90       100
                 ....*....|....*....|....*...
gi 499386609  82 PIIVLTQVHNLGVLQALLQIGIQGLLLK 109
Cdd:cd17546   75 PIIALTANALEEDREKCLEAGMDDYLSK 102
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 37-87 3.91e-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: 49.96  E-value: 3.91e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 499386609  37 NVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIVLT 87
Cdd:cd19919   32 NAQEALAALASSQPDVLISDIRMPG---MDGLALLAQIKQRHPDLPVIIMT 79
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 5-123 6.11e-08

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: 49.46  E-value: 6.11e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMqPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLrRKYPNLPII 84
Cdd:cd17532    1 ALIVDDEPLAREELRYLLEEH-PDIEIVGEAENGEEALEAIEELKPDVVFLDIQMP---GLDGLELAKKL-SKLAKPPLI 75

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 499386609  85 VLTQVHNLGVLQAlLQIGIQGLLLKKSVIAELEKTVKKV 123
Cdd:cd17532   76 VFVTAYDEYAVEA-FELNAVDYLLKPFSEERLAEALAKL 113
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 3-87 1.27e-07

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: 48.55  E-value: 1.27e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   3 FKIILADDHPIILTGV-RSLMAEmqpSCDIVaEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNL 81
Cdd:cd17569    1 PTILLVDDEPNILKALkRLLRRE---GYEVL-TATSGEEALEILKQEPVDVVISDQRMP---GMDGAELLKRVRERYPDT 73


                 ....*.
gi 499386609  82 PIIVLT 87
Cdd:cd17569   74 VRILLT 79
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 4-122 2.46e-07

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: 47.58  E-value: 2.46e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIiltgVR-SLMAEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLP 82
Cdd:cd17555    2 TILVIDDDEV----VReSIAAYLEDSGFQVLQAADGRQGLELFRSEQPDLVLCDLRMPE---MDGLEVLKQITKESPDTP 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 499386609  83 IIVltqVHNLGVLQ---ALLQIGIQGLLLKKSV-IAELEKTVKK 122
Cdd:cd17555   75 VIV---VSGAGVMSdavEALRLGAWDYLTKPIEdLAVLEHAVRR 115
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 5-210 3.76e-07

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: 48.56  E-value: 3.76e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAemqpSCDIVAEA-NNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPI 83
Cdd:COG4566    2 VYIVDDDEAVRDSLAFLLE----SAGLRVETfASAEAFLAALDPDRPGCLLLDVRMPG---MSGLELQEELAARGSPLPV 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  84 IVLTqvhnlG------VLQALlqigiqglllKKSVIAELEKTVKK-VLLGSVYIGETVHELLNEQGINQYAIPV---ELS 153
Cdd:COG4566   75 IFLT-----GhgdvpmAVRAM----------KAGAVDFLEKPFDDqALLDAVRRALARDRARRAERARRAELRArlaSLT 139

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 499386609 154 LKEIEVVRLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQG 210
Cdd:COG4566  140 PREREVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 51-124 4.49e-07

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: 46.91  E-value: 4.49e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499386609  51 DLLITDFSMPnddNVDGMAMIKQLRR--KYPNLPIIVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:cd17562   46 DLIITDQNMP---NMDGIELIKELRKlpAYKFTPILMLTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKVL 118
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 4-122 7.44e-07

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: 46.25  E-value: 7.44e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMqpSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNlPI 83
Cdd:cd19932    2 RVLIAEDEALIRMDLREMLEEA--GYEVVGEASDGEEAVELAKKHKPDLVIMDVKMP---RLDGIEAAKIITSENIA-PI 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 499386609  84 IVLTQVHNLGVLQALLQIGIQGLLLK----KSVIAELEKTVKK 122
Cdd:cd19932   76 VLLTAYSQQDLVERAKEAGAMAYLVKpfseSDLIPAIEMAIAR 118
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 7-87 8.05e-07

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: 45.86  E-value: 8.05e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   7 LADDHPIILTGVR-SLMAEMQpscdIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIV 85
Cdd:cd17574    2 VVEDDEEIAELLSdYLEKEGY----EVDTAADGEEALELAREEQPDLIILDVMLPG---MDGFEVCRRLREKGSDIPIIM 74


                 ..
gi 499386609  86 LT 87
Cdd:cd17574   75 LT 76
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
161-211 1.21e-06

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 47.01  E-value: 1.21e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 499386609 161 RLLANGMSVTQVASYLNRSVKTISTQKTNAMQKLGLKSDSELFHYAQQQGL 211
Cdd:COG2909  132 RLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGL 182
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 4-124 1.37e-06

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: 45.79  E-value: 1.37e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMQPScdIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRR--KYPNL 81
Cdd:cd19923    2 KVLVVDDFSTMRRIIKNLLKELGFN--NVEEAEDGVDALEKLKAGGFDFVITDWNMP---NMDGLELLKTIRAdgALSHL 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 499386609  82 PIIVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:cd19923   77 PVLMVTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKIF 119
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 4-87 4.97e-06

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: 43.64  E-value: 4.97e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTG-VRSLMAEmqpSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNLP 82
Cdd:cd18160    1 TILLADDEPSVRKFiVTTLKKA---GYAVTEAESGAEALEKLQQGKDIDIVVTDIVMP---EMDGIELAREARKIDPDVK 74


                 ....*
gi 499386609  83 IIVLT 87
Cdd:cd18160   75 ILFIS 79
PRK10610 PRK10610
chemotaxis protein CheY;
3-124 5.75e-06

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 44.19  E-value: 5.75e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   3 FKIILADDHPIILTGVRSLMAEMqpSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRR--KYPN 80
Cdd:PRK10610   6 LKFLVVDDFSTMRRIVRNLLKEL--GFNNVEEAEDGVDALNKLQAGGFGFVISDWNMP---NMDGLELLKTIRAdgAMSA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 499386609  81 LPIIVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:PRK10610  81 LPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIF 124
PRK10643 PRK10643
two-component system response regulator PmrA;
4-124 9.51e-06

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 44.64  E-value: 9.51e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMQPSCDIVAeanNVSELWRTLEQHECDLLITDFSMPNDDnvdGMAMIKQLRRKYPNLPI 83
Cdd:PRK10643   2 KILIVEDDTLLLQGLILALQTEGYACDCAS---TAREAEALLESGHYSLVVLDLGLPDED---GLHLLRRWRQKKYTLPV 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 499386609  84 IVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:PRK10643  76 LILTARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALI 116
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 5-87 1.13e-05

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: 42.86  E-value: 1.13e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPSCDIVAEANNVSELwrtLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPII 84
Cdd:cd17624    1 ILLVEDDALLGDGLKTGLRKAGYAVDWVRTGAEAEAA---LASGPYDLVILDLGLPD---GDGLDLLRRWRRQGQSLPVL 74


                 ...
gi 499386609  85 VLT 87
Cdd:cd17624   75 ILT 77
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 4-60 1.38e-05

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: 41.40  E-value: 1.38e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 499386609     4 KIILADDHPIILTGVRSLMAEMQPScdiVAEANNVSELWRTLEQHECDLLITDFSMP 60
Cdd:smart00448   2 RILVVDDDPLLRELLKALLEKEGYE---VDEATDGEEALELLKEEKPDLILLDIMMP 55
PRK15115 PRK15115
response regulator GlrR; Provisional
 5-87 1.51e-05

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 44.83  E-value: 1.51e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILT--GVRsLMAEMQPscdiVAEANNVSELWRTLEQHECDLLITDFSMpndDNVDGMAMIKQLRRKYPNLP 82
Cdd:PRK15115   8 LLLVDDDPGLLKllGMR-LTSEGYS----VVTAESGQEALRVLNREKVDLVISDLRM---DEMDGMQLFAEIQKVQPGMP 79


                 ....*
gi 499386609  83 IIVLT 87
Cdd:PRK15115  80 VIILT 84
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
3-87 3.77e-05

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 43.95  E-value: 3.77e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609    3 FKIILADDHPiiltgVRSLMAEMQPSC---DIVAEANNVSELWRTLEQHEcDLLITDFSMPnddNVDGMAMIKQLRRKYP 79
Cdd:PRK09959  959 LSILIADDHP-----TNRLLLKRQLNLlgyDVDEATDGVQALHKVSMQHY-DLLITDVNMP---NMDGFELTRKLREQNS 1029


                  ....*...
gi 499386609   80 NLPIIVLT 87
Cdd:PRK09959 1030 SLPIWGLT 1037
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 27-119 4.15e-05

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: 41.46  E-value: 4.15e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  27 PSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIVLTQVHNLGVLQALLQIGIQGL 106
Cdd:cd19925   24 PGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPD---GNGLDLLRELRAAGHDVDVIVVTAANDVETVREALRLGVVDY 100

                         90
                 ....*....|...
gi 499386609 107 LLKKSVIAELEKT 119
Cdd:cd19925  101 LIKPFTFERLRQR 113
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 5-124 9.04e-05

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: 40.44  E-value: 9.04e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTgvrSLMAEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPII 84
Cdd:cd17627    1 ILVVDDDRAVRE---SLRRSLRFEGYEVETAVDGAEALRVISGNRPDAVVLDVMMPR---LDGLEVCRRLRAAGNDLPIL 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 499386609  85 VLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:cd17627   75 VLTARDSVSDRVAGLDAGADDYLVKPFALEELLARVRALL 114
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 4-123 9.98e-05

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: 40.28  E-value: 9.98e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIIltgvRSLMA-EMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLP 82
Cdd:cd17554    2 KILVVDDEENI----RELYKeELEDEGYEVVTAGNGEEALEKLESEDPDLVILDIKMPG---MDGLETLRKIREKKPDLP 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 499386609  83 IIVLTQV----HNLGVLQAllqigiQGLLLKKSVIAELEKTVKKV 123
Cdd:cd17554   75 VIICTAYseykSDFSSWAA------DAYVVKSSDLTELKETIKRL 113
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 5-87 1.39e-04

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: 40.17  E-value: 1.39e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLM--AEMQPSCdivaeANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLP 82
Cdd:cd17549    1 VLLVDDDADVREALQQTLelAGFRVRA-----FADAEEALAALSPDFPGVVISDIRMPG---MDGLELLAQIRELDPDLP 72


                 ....*
gi 499386609  83 IIVLT 87
Cdd:cd17549   73 VILIT 77
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 32-87 1.58e-04

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: 40.67  E-value: 1.58e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 499386609  32 VAEANNVSELWRTLEQHECDLLITDFSMPNDDnvdGMAMIKQLRRKYPNLPIIVLT 87
Cdd:COG4567   31 VTTAASVEEALALLEQAPPDYAVLDLRLGDGS---GLDLIEALRERDPDARIVVLT 83
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 37-87 1.62e-04

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 41.78  E-value: 1.62e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 499386609  37 NVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIVLT 87
Cdd:PRK10923  35 NGNEVLEALASKTPDVLLSDIRMPG---MDGLALLKQIKQRHPMLPVIIMT 82
PRK10693 PRK10693
two-component system response regulator RssB;
33-109 1.71e-04

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 41.51  E-value: 1.71e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499386609  33 AEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIVLTQVHNLGVLQALLQIGIQGLLLK 109
Cdd:PRK10693   1 VLAANGVDALELLGGFTPDLIICDLAMPR---MNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLK 74
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 5-87 2.80e-04

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: 38.98  E-value: 2.80e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPscdIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRR--KYPNLP 82
Cdd:cd17580    1 ILVVDDNEDAAEMLALLLELEGA---EVTTAHSGEEALEAAQRFRPDVILSDIGMP---GMDGYELARRLRElpWLANTP 74


                 ....*
gi 499386609  83 IIVLT 87
Cdd:cd17580   75 AIALT 79
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 32-87 3.42e-04

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: 38.96  E-value: 3.42e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 499386609  32 VAEANNVSELWRTLEQHECDLLITDFSMPNDDnvdGMAMIKQLRRKYPNLPIIVLT 87
Cdd:cd17563   27 VETAHSVEEALALAREEKPDYAVLDLRLGGDS---GLDLIPPLRALQPDARIVVLT 79
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 4-109 4.34e-04

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: 38.36  E-value: 4.34e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEmQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLR--RKYPNL 81
Cdd:cd17561    3 KVLIADDNREFVQLLEEYLNS-QPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMP---HLDGIGVLEKLRrmRLEKRP 78

                         90       100
                 ....*....|....*....|....*...
gi 499386609  82 PIIVLTQVHNLGVLQALLQIGIQGLLLK 109
Cdd:cd17561   79 KIIMLTAFGQEDITQRAVELGASYYILK 106
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 5-87 5.05e-04

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: 38.10  E-value: 5.05e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPSCDIVAEANNVSELwrtLEQH-ECDLLITDFSMPNDDNvdGMAMIKQLRRKYPNLPI 83
Cdd:cd18161    1 VLVVEDDPDVRRLTAEVLEDLGYTVLEAASGDEALDL---LESGpDIDLLVTDVIMPGGMN--GSQLAEEARRRRPDLKV 75


                 ....
gi 499386609  84 IVLT 87
Cdd:cd18161   76 LLTS 79
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 5-87 8.73e-04

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: 37.42  E-value: 8.73e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRslMAEMQPSCDIVAEANNVSELwRTLEQHECDLLITDFSMPNDdnvDGMAMIKQLRRKyPNLPII 84
Cdd:cd19936    1 IALVDDDRNILTSVS--MALEAEGFSVETYTDGASAL-DGLNARPPDLAILDIKMPRM---DGMELLQRLRQK-STLPVI 73


                 ...
gi 499386609  85 VLT 87
Cdd:cd19936   74 FLT 76
HTH_38 pfam13936
Helix-turn-helix domain; This helix-turn-helix domain is often found in transferases and is ...
 152-184 1.11e-03

Helix-turn-helix domain; This helix-turn-helix domain is often found in transferases and is likely to be DNA-binding.


Pssm-ID: 433591 [Multi-domain]  Cd Length: 44  Bit Score: 35.57  E-value: 1.11e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 499386609  152 LSLKEIEVV-RLLANGMSVTQVASYLNRSVKTIS 184
Cdd:pfam13936   5 LSLEEREEIaRLLAEGLSLREIARRLGRSPSTIS 38
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 5-87 1.16e-03

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: 37.37  E-value: 1.16e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPScdiVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKyPNLPII 84
Cdd:cd17619    3 ILIVEDEPVTRATLKSYFEQEGYD---VSEAGDGEEMRQILARQDIDLVLLDINLP---GKDGLSLTRELREQ-SEVGII 75


                 ...
gi 499386609  85 VLT 87
Cdd:cd17619   76 LVT 78
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
32-124 1.18e-03

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 39.24  E-value: 1.18e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  32 VAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIVLTQVHNLGVLQALLQIGIQGLLLKKS 111
Cdd:PRK10365  32 VALANSGRQALEQVREQVFDLVLCDVRMAE---MDGIATLKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIKPL 108

                         90
                 ....*....|...
gi 499386609 112 VIAELEKTVKKVL 124
Cdd:PRK10365 109 DFDNLQATLEKAL 121
PRK10816 PRK10816
two-component system response regulator PhoP;
4-87 1.28e-03

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 38.57  E-value: 1.28e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILtgvRSLMAEMQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNDDnvdGMAMIKQLRRKYPNLPI 83
Cdd:PRK10816   2 RVLVVEDNALLR---HHLKVQLQDAGHQVDAAEDAKEADYYLNEHLPDIAIVDLGLPDED---GLSLIRRWRSNDVSLPI 75


                 ....
gi 499386609  84 IVLT 87
Cdd:PRK10816  76 LVLT 79
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 5-102 1.30e-03

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: 37.13  E-value: 1.30e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPScdiVAEANNVSELWRTLEQHECDLLITDFSMPNDdnvDGMAMIKQLRRKYPNLPII 84
Cdd:cd19926    1 VLVVDDEPDIRELLEITLGRMGLD---VRSARNVKEARELLASEPYDLCLTDMRLPDG---SGLELVQHIQQRLPQTPVA 74

                         90
                 ....*....|....*...
gi 499386609  85 VLTQVHNLGVLQALLQIG 102
Cdd:cd19926   75 VITAYGSLDTAIEALKAG 92
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 5-109 1.32e-03

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: 37.22  E-value: 1.32e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPSCDIvaeANNVSELWRTLEQHEC--DLLITDFSMPnddNVDGMAMIKQLrRKYPNLP 82
Cdd:cd17584    1 VLVVDDDPTCLAILKRMLLRCGYQVTT---CTDAEEALSMLRENKDefDLVITDVHMP---DMDGFEFLELI-RLEMDLP 73

                         90       100
                 ....*....|....*....|....*..
gi 499386609  83 IIVLTQVHNLGVLQALLQIGIQGLLLK 109
Cdd:cd17584   74 VIMMSADGSTSTVMKGLAHGACDYLLK 100
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 32-87 1.80e-03

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: 36.71  E-value: 1.80e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 499386609  32 VAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIVLT 87
Cdd:cd17550   25 VDTAADGEEALKLIKERRPDLVLLDIWLPD---MDGLELLKEIKEKYPDLPVIMIS 77
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 4-87 1.84e-03

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: 36.99  E-value: 1.84e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIiltgVRSLMAEM---QPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPn 80
Cdd:cd17541    2 RVLIVDDSAV----MRKLLSRIlesDPDIEVVGTARDGEEALEKIKELKPDVITLDIEMP---VMDGLEALRRIMAERP- 73


                 ....*..
gi 499386609  81 LPIIVLT 87
Cdd:cd17541   74 TPVVMVS 80
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 4-87 1.88e-03

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: 36.95  E-value: 1.88e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRslMAEMQPSCDIVAEANNVSELwRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPI 83
Cdd:cd17615    1 RVLVVDDEPNITELLS--MALRYEGWDVETAADGAEAL-AAAREFRPDAVVLDIMLPD---MDGLEVLRRLRADGPDVPV 74


                 ....
gi 499386609  84 IVLT 87
Cdd:cd17615   75 LFLT 78
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 31-87 2.28e-03

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: 36.26  E-value: 2.28e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 499386609  31 IVAEANNVSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIVLT 87
Cdd:cd19935   24 AVDVAYDGEDGLHLALTNEYDLIILDVMLPG---LDGLEVLRRLRAAGKQTPVLMLT 77
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 5-87 2.39e-03

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: 36.49  E-value: 2.39e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPSCDIVAEAnnvSELWRTLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPII 84
Cdd:cd19934    1 LLLVEDDALLAAQLKEQLSDAGYVVDVAEDG---EEALFQGEEEPYDLVVLDLGLPG---MDGLSVLRRWRSEGRATPVL 74


                 ...
gi 499386609  85 VLT 87
Cdd:cd19934   75 ILT 77
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 30-124 3.98e-03

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: 35.72  E-value: 3.98e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609  30 DIVAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNLPIIVLTQVHNLGVLQALLQIGIQGLLLK 109
Cdd:cd17542   26 EVVGEAANGEEAVEKYKELKPDLVTMDITMP---EMDGIEALKEIKKIDPNAKVIMCSAMGQEEMVKEAIKAGAKDFIVK 102

                         90
                 ....*....|....*
gi 499386609 110 KSVIAELEKTVKKVL 124
Cdd:cd17542  103 PFQPERVLEAVEKVL 117
ompR PRK09468
osmolarity response regulator; Provisional
 4-87 4.03e-03

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 37.26  E-value: 4.03e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPiiltGVRSLMAE-MQPSCDIVAEANNVSELWRTLEQHECDLLITDFSMPNDDnvdGMAMIKQLRRKYPNLP 82
Cdd:PRK09468   7 KILVVDDDM----RLRALLERyLTEQGFQVRSAANAEQMDRLLTRESFHLMVLDLMLPGED---GLSICRRLRSQNNPTP 79


                 ....*
gi 499386609  83 IIVLT 87
Cdd:PRK09468  80 IIMLT 84
Tra8 COG2826
Transposase and inactivated derivatives, IS30 family [Mobilome: prophages, transposons];
152-184 5.13e-03

Transposase and inactivated derivatives, IS30 family [Mobilome: prophages, transposons];


Pssm-ID: 442074 [Multi-domain]  Cd Length: 325  Bit Score: 37.17  E-value: 5.13e-03
                         10        20        30
                 ....*....|....*....|....*....|....
gi 499386609 152 LSLKE-IEVVRLLANGMSVTQVASYLNRSVKTIS 184
Cdd:COG2826    7 LTLEErEEIEALLKAGLSVREIARRLGRSPSTIS 40
PRK10841 PRK10841
two-component system sensor histidine kinase RcsC;
4-87 5.18e-03

two-component system sensor histidine kinase RcsC;


Pssm-ID: 182772 [Multi-domain]  Cd Length: 924  Bit Score: 37.26  E-value: 5.18e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIiltgVRSLMAEMQPSCDI-VAEANNVSELWRTLEQHECDLLITDFSMPnddNVDGMAMIKQLRRKYPNLP 82
Cdd:PRK10841 803 MILVVDDHPI----NRRLLADQLGSLGYqCKTANDGVDALNVLSKNHIDIVLTDVNMP---NMDGYRLTQRLRQLGLTLP 875


                 ....*
gi 499386609  83 IIVLT 87
Cdd:PRK10841 876 VIGVT 880
PRK15479 PRK15479
transcriptional regulator TctD;
4-124 5.78e-03

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 36.62  E-value: 5.78e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   4 KIILADDHPIILTGVRSLMAEMQPSCDIVAEANNVSELwrtLEQHECDLLITDFSMPNddnVDGMAMIKQLRRKYPNLPI 83
Cdd:PRK15479   2 RLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHL---LQSEMYALAVLDINMPG---MDGLEVLQRLRKRGQTLPV 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 499386609  84 IVLTQVHNLGVLQALLQIGIQGLLLKKSVIAELEKTVKKVL 124
Cdd:PRK15479  76 LLLTARSAVADRVKGLNVGADDYLPKPFELEELDARLRALL 116
PRK08295 PRK08295
RNA polymerase sporulation sigma factor SigH;
152-193 5.86e-03

RNA polymerase sporulation sigma factor SigH;


Pssm-ID: 181361 [Multi-domain]  Cd Length: 208  Bit Score: 36.42  E-value: 5.86e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 499386609 152 LSLKEIEVVRLLANGMSVTQVASYLNRSVKTIStqktNAMQK 193
Cdd:PRK08295 156 LSELEKEVLELYLDGKSYQEIAEELNRHVKSID----NALQR 193
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 5-87 7.11e-03

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: 35.05  E-value: 7.11e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499386609   5 IILADDHPIILTGVRSLMAEMQPScdiVAEANNVSELWRTLEQ---------HECDLLITDFSMPnddNVDGMAMIKQLR 75
Cdd:cd19924    1 ILVVDDSPTARKQLRDLLKNLGFE---IAEAVDGEEALNKLENlakegndlsKELDLIITDIEMP---KMDGYELTFELR 74

                         90
                 ....*....|....
gi 499386609  76 R--KYPNLPIIVLT 87
Cdd:cd19924   75 DdpRLANIPVILNS 88
HTH_23 pfam13384
Homeodomain-like domain;
157-184 7.22e-03

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 33.40  E-value: 7.22e-03
                          10        20
                  ....*....|....*....|....*...
gi 499386609  157 IEVVRLLANGMSVTQVASYLNRSVKTIS 184
Cdd:pfam13384   8 ARALLLLAEGLSVKEIAELLGVSRRTVY 35
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 51-87 9.57e-03

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: 34.89  E-value: 9.57e-03
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 499386609  51 DLLITDFSMPNddnVDGMAMIKQLRRKYPNLPIIVLT 87
Cdd:cd17625   43 DLIILDIMLPG---MDGLEVLKSLREEGIETPVLLLT 76
 
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