NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1042790949|gb|ANQ51516|]
View 

response regulator transcription factor [Flammeovirga sp. MY04]

Protein Classification

response regulator transcription factor( domain architecture ID 11468274)

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; it receives the signal from the sensor partner, binds DNA upon phosphorylation, and functions as a transcriptional regulator

CATH:  3.40.50.2300|1.10.10.10
Gene Ontology:  GO:0000160|GO:0000156|GO:0003677|GO:0006355
PubMed:  20226724|15808743|10966457
SCOP:  4003632

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 10-207 1.24e-23

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: 93.63  E-value: 1.24e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEAL---IVSLLtnffeEQEEIEVLSnHTNGDDFLAQLSEEnkIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMS 86
Cdd:COG4566     7 DDEAVrdsLAFLL-----ESAGLRVET-FASAEAFLAALDPD--RPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLT 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  87 SHYNKSlmgfM----LKTGAAAFIPKGVSPKKLLQIIKEVEERG--FYFEQDQLDIIREQVSSktpvpnlsndvvLSNRE 160
Cdd:COG4566    79 GHGDVP----MavraMKAGAVDFLEKPFDDQALLDAVRRALARDraRRAERARRAELRARLAS------------LTPRE 142

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 1042790949 161 IDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLV 207
Cdd:COG4566   143 REVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELV 189
 
Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 10-207 1.24e-23

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: 93.63  E-value: 1.24e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEAL---IVSLLtnffeEQEEIEVLSnHTNGDDFLAQLSEEnkIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMS 86
Cdd:COG4566     7 DDEAVrdsLAFLL-----ESAGLRVET-FASAEAFLAALDPD--RPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLT 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  87 SHYNKSlmgfM----LKTGAAAFIPKGVSPKKLLQIIKEVEERG--FYFEQDQLDIIREQVSSktpvpnlsndvvLSNRE 160
Cdd:COG4566    79 GHGDVP----MavraMKAGAVDFLEKPFDDQALLDAVRRALARDraRRAERARRAELRARLAS------------LTPRE 142

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 1042790949 161 IDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLV 207
Cdd:COG4566   143 REVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELV 189
PRK15369 PRK15369
two component system response regulator;
1-211 7.09e-18

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 78.58  E-value: 7.09e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   1 MNAISISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSI 80
Cdd:PRK15369    1 MKNYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLE--PDIVILDLGLPGMNGLDVIPQLHQRWPAM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  81 KTIIMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEeRGFYFEQDQLDiiREQVSSKTPVPNlSNDVVLSNRE 160
Cdd:PRK15369   79 NILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVA-VGKRYIDPALN--REAILALLNADD-TNPPLLTPRE 154

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1042790949 161 IDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAI 211
Cdd:PRK15369  155 RQILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWAR 205
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 10-122 1.22e-16

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: 72.93  E-value: 1.22e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEEnkIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:cd17535     5 DDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLREL--RPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTAHD 82

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEV 122
Cdd:cd17535    83 DPEYVLRALKAGAAGYLLKDSSPEELIEAIRAV 115
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 10-120 4.12e-15

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: 68.72  E-value: 4.12e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEeQEEIEVLSnHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:pfam00072   5 DDDPLIRELLRQLLE-KEGYVVAE-ADDGKEALELLKEER--PDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIK 120
Cdd:pfam00072  81 DEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 153-210 9.03e-15

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 66.40  E-value: 9.03e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1042790949  153 DVVLSNREIDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYA 210
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
 
Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 10-207 1.24e-23

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: 93.63  E-value: 1.24e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEAL---IVSLLtnffeEQEEIEVLSnHTNGDDFLAQLSEEnkIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMS 86
Cdd:COG4566     7 DDEAVrdsLAFLL-----ESAGLRVET-FASAEAFLAALDPD--RPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLT 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  87 SHYNKSlmgfM----LKTGAAAFIPKGVSPKKLLQIIKEVEERG--FYFEQDQLDIIREQVSSktpvpnlsndvvLSNRE 160
Cdd:COG4566    79 GHGDVP----MavraMKAGAVDFLEKPFDDQALLDAVRRALARDraRRAERARRAELRARLAS------------LTPRE 142

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 1042790949 161 IDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLV 207
Cdd:COG4566   143 REVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELV 189
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 4-216 9.82e-21

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: 84.17  E-value: 9.82e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   4 ISISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILkkdypsikti 83
Cdd:COG2197     2 IRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELR--PDVVLLDIRMPGMDGLEALRRL---------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  84 imsshynkslmgfmlktgaaafipkgvspkkllqiikeveergfyfeqdqldiireqvssktpvpnlsndvvLSNREIDV 163
Cdd:COG2197    70 ------------------------------------------------------------------------LTPREREV 77

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1042790949 164 LKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAIQHNIV 216
Cdd:COG2197    78 LRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
PRK15369 PRK15369
two component system response regulator;
1-211 7.09e-18

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 78.58  E-value: 7.09e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   1 MNAISISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSI 80
Cdd:PRK15369    1 MKNYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLE--PDIVILDLGLPGMNGLDVIPQLHQRWPAM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  81 KTIIMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEeRGFYFEQDQLDiiREQVSSKTPVPNlSNDVVLSNRE 160
Cdd:PRK15369   79 NILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVA-VGKRYIDPALN--REAILALLNADD-TNPPLLTPRE 154

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1042790949 161 IDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAI 211
Cdd:PRK15369  155 RQILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWAR 205
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 10-122 1.22e-16

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: 72.93  E-value: 1.22e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEEnkIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:cd17535     5 DDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLREL--RPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTAHD 82

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEV 122
Cdd:cd17535    83 DPEYVLRALKAGAAGYLLKDSSPEELIEAIRAV 115
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 10-125 1.25e-16

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: 77.70  E-value: 1.25e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEqEEIEVLSnHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:COG2204     9 DDDPDIRRLLKELLER-AGYEVET-AASGEEALALLREEP--PDLVLLDLRMPGMDGLELLRELRALDPDLPVILLTGYG 84

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEER 125
Cdd:COG2204    85 DVETAVEAIKAGAFDYLTKPFDLEELLAAVERALER 120
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 10-108 3.91e-16

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: 71.34  E-value: 3.91e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:COG4753     6 DDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHK--PDLVITDINMPGMDGLELLEAIRELDPDTKIIILSGYS 83

                          90
                  ....*....|....*....
gi 1042790949  90 NKSLMGFMLKTGAAAFIPK 108
Cdd:COG4753    84 DFEYAQEAIKLGADDYLLK 102
PRK10360 PRK10360
transcriptional regulator UhpA;
4-202 4.25e-16

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 73.86  E-value: 4.25e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   4 ISISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSeeNKIPQILILDLKMEGKSGVDILSILKKdypSIKTI 83
Cdd:PRK10360    2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLP--GRGVQVCICDISMPDISGLELLSQLPK---GMATI 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  84 IMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEERGFYFEQDqldiIREQVSSKTPVPnlsndvvLSNREIDV 163
Cdd:PRK10360   77 MLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPD----IAIKLASGRQDP-------LTKRERQV 145

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1042790949 164 LKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKN 202
Cdd:PRK10360  146 AEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSN 184
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
1-216 1.45e-15

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 72.60  E-value: 1.45e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   1 MNAISISMLDDEALIVSLLTNFFEEQEEIEVLSNhtNGDDFLAQLSEENKIPQILILDLKMEGKSGVDILSILKKDYPSI 80
Cdd:PRK09935    1 MKPASVIIMDTHPIIRMSIEVLLQKNSELQIVLK--TDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTV 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  81 KTIIMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEERGFYFEQDQLDIIREQVSSKtpvpNLSNDVVLSNRE 160
Cdd:PRK09935   79 KVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETLNYIKSNKCST----NSSTDTVLSNRE 154

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1042790949 161 IDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAIQHNIV 216
Cdd:PRK09935  155 VTILRYLVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHELL 210
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-140 3.12e-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: 3.12e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   1 MNAISISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSI 80
Cdd:COG4565     1 MKMIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHR--PDLILLDIYLPDGDGLELLRELRARGPDV 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  81 KTIIMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEERGFYFEQDQLDIIREQ 140
Cdd:COG4565    79 DVIVITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLLREDQEEDLPEA 138
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 10-120 4.12e-15

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: 68.72  E-value: 4.12e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEeQEEIEVLSnHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:pfam00072   5 DDDPLIRELLRQLLE-KEGYVVAE-ADDGKEALELLKEER--PDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIK 120
Cdd:pfam00072  81 DEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 153-210 9.03e-15

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 66.40  E-value: 9.03e-15
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1042790949  153 DVVLSNREIDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYA 210
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 156-219 1.34e-14

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


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 66.52  E-value: 1.34e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1042790949 156 LSNREIDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAIQHNIVKAE 219
Cdd:COG5905    13 LTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLSLD 76
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
8-209 2.74e-14

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 69.11  E-value: 2.74e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   8 MLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSS 87
Cdd:PRK10403   11 IVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLD--PDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILTV 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  88 HYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEERGFYFEQDQLDIIREQVSSKTPVPNLSndvVLSNREIDVLKLI 167
Cdd:PRK10403   89 SDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLREREMFGAEEDPFS---VLTERELDVLHEL 165

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1042790949 168 CYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKN-IAGLVIY 209
Cdd:PRK10403  166 AQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSrVAATILF 208
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
131-216 4.40e-14

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 68.24  E-value: 4.40e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949 131 QDQLDIIREQVSSKTPVPNLSNDVVLSNREIDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYA 210
Cdd:COG2771   103 ALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALA 182


                  ....*.
gi 1042790949 211 IQHNIV 216
Cdd:COG2771   183 LRLGLI 188
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 156-212 1.14e-13

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: 63.32  E-value: 1.14e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1042790949 156 LSNREIDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAIQ 212
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 10-108 1.34e-13

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: 64.56  E-value: 1.34e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEqEEIEVLSnHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:cd00156     4 DDDPAIRELLKSLLER-EGYEVDT-AADGEEALELLREER--PDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKA 79

                          90
                  ....*....|....*....
gi 1042790949  90 NKSLMGFMLKTGAAAFIPK 108
Cdd:cd00156    80 DEEDAVRALELGADDYLVK 98
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 10-203 1.41e-13

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: 66.90  E-value: 1.41e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEeQEEIEVLSnHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:COG0745     8 EDDPDIRELLADALE-REGYEVDT-AADGEEALELLEEER--PDLILLDLMLPGMDGLEVCRRLRARPSDIPIIMLTARD 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEERG---FYFEQDQLDIIREQVSSKtpvpnlSNDVVLSNREIDVLKL 166
Cdd:COG0745    84 DEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRaaeVLRVGDLLDLAAREVTRD------GEPVELTPKEFRLLEL 157

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 1042790949 167 ICYQK----TAKEIGDEL----FITKRTVEGHKNNLFLKTETKNI 203
Cdd:COG0745   158 LMRNPgrvvSREQLLEEVwgydYGDDRTVDVHISRLRKKLEDDLI 202
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 10-122 7.71e-13

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: 63.33  E-value: 7.71e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEeQEEIEVLSnHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKD--YPSIKTIIMSS 87
Cdd:COG0784    12 DDNPDNRELLRRLLE-RLGYEVTT-AEDGAEALELLRAGP--PDLILLDINMPGMDGLELLRRIRALprLPDIPIIALTA 87

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1042790949  88 HYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEV 122
Cdd:COG0784    88 YADEEDRERALEAGADDYLTKPVDPEELLEALRRL 122
fixJ PRK09390
response regulator FixJ; Provisional
 10-211 1.11e-12

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 64.25  E-value: 1.11e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLltNFFEEQEEIEVLSnHTNGDDFLAQLSEenKIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:PRK09390   11 DDEAMRDSL--AFLLDSAGFEVRL-FESAQAFLDALPG--LRFGCVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGHG 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIkeveERGFyfeqdqldiirEQVSSKTPVPNLSNDVV-----LSNREIDVL 164
Cdd:PRK09390   86 DVPLAVEAMKLGAVDFIEKPFEDERLIGAI----ERAL-----------AQAPEAAKSEAVAADIRariasLSERERQVM 150

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 1042790949 165 KLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAI 211
Cdd:PRK09390  151 DGLVAGLSNKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVRMAL 197
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 10-124 1.87e-12

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: 61.90  E-value: 1.87e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:cd19930     5 EDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHS--PDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTTFG 82

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEE 124
Cdd:cd19930    83 RPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
GerE pfam00196
Bacterial regulatory proteins, luxR family;
154-210 3.77e-12

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 59.14  E-value: 3.77e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1042790949 154 VVLSNREIDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYA 210
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 3-215 4.59e-11

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 60.04  E-value: 4.59e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   3 AISISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAqLSEENKiPQILILDLKMEGKSGVDILSILKKDYPSIKT 82
Cdd:PRK10651    6 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIE-LAESLD-PDLILLDLNMPGMNGLETLDKLREKSLSGRI 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  83 IIMS-SHYNKSLMGfMLKTGAAAFIPKGVSPKKLLQIIKEVEeRGFYFEQDQLDIIREQVSSKTPVPNLSNDVVLSNREI 161
Cdd:PRK10651   84 VVFSvSNHEEDVVT-ALKRGADGYLLKDMEPEDLLKALQQAA-AGEMVLSEALTPVLAASLRANRATTERDVNQLTPRER 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1042790949 162 DVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAIQHNI 215
Cdd:PRK10651  162 DILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERI 215
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 10-125 4.75e-11

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 60.22  E-value: 4.75e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:COG3279     8 DDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHK--PDLVFLDIQMPGLDGFELARQLRELDPPPPIIFTTAYD 85

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1042790949  90 NKSLMGFmlKTGAAAFIPKGVSPKKLLQIIKEVEER 125
Cdd:COG3279    86 EYALEAF--EVNAVDYLLKPIDEERLAKALEKAKER 119
PRK09483 PRK09483
response regulator; Provisional
 4-224 5.76e-11

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 60.12  E-value: 5.76e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   4 ISISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDfLAQLSEENKiPQILILDLKMEGKSGVDILSILKKDYPSIKTI 83
Cdd:PRK09483    2 INVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGED-AVKWCRTNA-VDVVLMDMNMPGIGGLEATRKILRYTPDVKII 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  84 IMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEERGFYFEQD---QLDIirEQVSSKTPVPNLSndvvLSNRE 160
Cdd:PRK09483   80 MLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDiaqQMAL--SQIEPATENPFAS----LSERE 153

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1042790949 161 IDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTetkNIAG---LVIYAIQHNIVKAEDLFIS 224
Cdd:PRK09483  154 LQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKL---NISGdveLTHLAIRHGLLNAETLSSQ 217
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 10-125 6.05e-11

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: 57.73  E-value: 6.05e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEQE-EIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSH 88
Cdd:cd17536     5 DDEPLIREGLKKLIDWEElGFEVVGEAENGEEALELIEEHK--PDIVITDIRMPGMDGLELIEKIRELYPDIKIIILSGY 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1042790949  89 ----YNKSlmgfMLKTGAAAFIPKGVSPKKLLQIIKEVEER 125
Cdd:cd17536    83 ddfeYAQK----AIRLGVVDYLLKPVDEEELEEALEKAKEE 119
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
1-215 1.08e-10

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 59.14  E-value: 1.08e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   1 MNAISIsmlDDEALIVSLLTNFFEEQEeIEVLSNHTNGDDFLAQLseENKIPQILILDLKMEGKSGVDILSILKKDYPSI 80
Cdd:PRK09958    1 MNAIII---DDHPLAIAAIRNLLIKND-IEILAELTEGGSAVQRV--ETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSG 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  81 KTIIMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEERGFYFEqdqldiireqVSSKTPVPNLSNDV----VL 156
Cdd:PRK09958   75 IIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFP----------FSLNRFVGSLTSDQqkldSL 144

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1042790949 157 SNREIDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAIQHNI 215
Cdd:PRK09958  145 SKQEISVMRYILDGKDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQRNKI 203
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 10-120 1.60e-10

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: 56.74  E-value: 1.60e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEqEEIEVLSNHtNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:cd17550     5 DDEEDIRESLSGILED-EGYEVDTAA-DGEEALKLIKERR--PDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMISGHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIK 120
Cdd:cd17550    81 TIETAVKATKLGAYDFIEKPLSLDRLLLTIE 111
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 10-119 3.91e-10

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: 56.84  E-value: 3.91e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEeQEEIEVLSnHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKD--YPSIKTIIMSS 87
Cdd:COG3706     8 DDDPTNRKLLRRLLE-AAGYEVVE-AADGEEALELLQEHR--PDLILLDLEMPDMDGLELCRRLRADprTADIPIIFLTA 83

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1042790949  88 HYNKSLMGFMLKTGAAAFIPKGVSPKKLLQII 119
Cdd:COG3706    84 LDDEEDRARALEAGADDYLTKPFDPEELLARV 115
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 10-121 5.10e-10

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


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 55.29  E-value: 5.10e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLltNFFEEQEEIEVlSNHTNGDDFLAQLSEEnkIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:cd17537     8 DDEAVRDSL--AFLLRSVGLAV-KTFTSASAFLAAAPPD--QPGCLVLDVRMPGMSGLELQDELLARGSNIPIIFITGHG 82

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKE 121
Cdd:cd17537    83 DVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQ 114
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 4-108 3.43e-07

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: 47.22  E-value: 3.43e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   4 ISISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLseENKIPQILILDLKMEGKSGVDILSIL--KKDYPSIK 81
Cdd:cd17561     2 IKVLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELI--EEKEPDVLLLDIIMPHLDGIGVLEKLrrMRLEKRPK 79

                          90       100
                  ....*....|....*....|....*..
gi 1042790949  82 TIIMSSHYNKSLMGFMLKTGAAAFIPK 108
Cdd:cd17561    80 IIMLTAFGQEDITQRAVELGASYYILK 106
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 10-120 7.69e-07

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: 46.71  E-value: 7.69e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFfeEQEEIEVLSnHTNGDDFLAQLSEEnkIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:cd17549     6 DDADVREALQQTL--ELAGFRVRA-FADAEEALAALSPD--FPGVVISDIRMPGMDGLELLAQIRELDPDLPVILITGHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1042790949  90 NKSLMGFMLKTGAAAFIPKGVSPKKLLQIIK 120
Cdd:cd17549    81 DVPMAVEAMRAGAYDFLEKPFDPERLLDVVR 111
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 5-89 1.08e-06

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: 46.06  E-value: 1.08e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   5 SISMLDDEALIVSLLTNFFEEqEEIEVLSNHtNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTII 84
Cdd:cd17554     2 KILVVDDEENIRELYKEELED-EGYEVVTAG-NGEEALEKLESED--PDLVILDIKMPGMDGLETLRKIREKKPDLPVII 77


                  ....*..
gi 1042790949  85 MS--SHY 89
Cdd:cd17554    78 CTaySEY 84
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 37-88 1.25e-06

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: 45.73  E-value: 1.25e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1042790949  37 NGDDFLAQLseENKIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSH 88
Cdd:cd19919    32 NAQEALAAL--ASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIMTAH 81
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 37-124 1.51e-06

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


Pssm-ID: 381108 [Multi-domain]  Cd Length: 129  Bit Score: 45.87  E-value: 1.51e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  37 NGDDFLAQLSEENK-----IPQILILDLKMEGKSGVDILSILKKDyPSIKTI---IMSSHYNKSLMGFMLKTGAAAFIPK 108
Cdd:cd17557    33 DGEEALDFLRGEGEyadapRPDLILLDLNMPRMDGFEVLREIKAD-PDLRRIpvvVLTTSDAEEDIERAYELGANSYIVK 111

                          90
                  ....*....|....*.
gi 1042790949 109 GVSPKKLLQIIKEVEE 124
Cdd:cd17557   112 PVDFEEFVEAIRSLGE 127
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
166-216 1.87e-06

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 46.62  E-value: 1.87e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1042790949 166 LICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAIQHNIV 216
Cdd:COG2909   133 LLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGLL 183
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 6-125 4.36e-06

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


Pssm-ID: 381138 [Multi-domain]  Cd Length: 115  Bit Score: 44.22  E-value: 4.36e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   6 ISMLDDEALIVSLLTNFFEeQEEIEVLSNHtNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDypSIKTIIM 85
Cdd:cd17623     1 ILLIDDDRELTELLTEYLE-MEGFNVRAAH-DGEQGLAALLEGS--PDLVVLDVMLPKMNGLDVLKELRKT--SQVPVLM 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1042790949  86 SSHYNKSL---MGfmLKTGAAAFIPKGVSPKKLLQIIKEVEER 125
Cdd:cd17623    75 LTARGDDIdriLG--LELGADDYLPKPFNPRELVARIRAILRR 115
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 9-108 4.84e-06

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


Pssm-ID: 381112 [Multi-domain]  Cd Length: 103  Bit Score: 43.80  E-value: 4.84e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   9 LDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSH 88
Cdd:cd17565     4 VDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQ--PDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMISQV 81

                          90       100
                  ....*....|....*....|
gi 1042790949  89 YNKSLMGFMLKTGAAAFIPK 108
Cdd:cd17565    82 SDKEMIGKAYQAGIEFFINK 101
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
6-133 6.42e-06

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 45.56  E-value: 6.42e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   6 ISMLDDEALIVSLLTNFFEeQEEIEVLSNHtNGDDFLAQLseENKIpQILILDLKMEGKSGVDILSILKKDY--PSIKTI 83
Cdd:PRK10955    4 ILLVDDDRELTSLLKELLE-MEGFNVIVAH-DGEQALDLL--DDSI-DLLLLDVMMPKKNGIDTLKELRQTHqtPVIMLT 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 1042790949  84 IMSSHYNKSLMgfmLKTGAAAFIPKGVSPKKLLQIIKEVEERGFYFEQDQ 133
Cdd:PRK10955   79 ARGSELDRVLG---LELGADDYLPKPFNDRELVARIRAILRRSHWSEQQQ 125
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
1-108 1.11e-05

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 45.53  E-value: 1.11e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   1 MNAISISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSI 80
Cdd:PRK00742    1 MMKIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLN--PDVITLDVEMPVMDGLDALEKIMRLRPTP 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1042790949  81 ktIIMSShynkSLmgfmlkT-------------GAAAFIPK 108
Cdd:PRK00742   79 --VVMVS----SL------TergaeitlralelGAVDFVTK 107
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 36-133 1.55e-05

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 45.25  E-value: 1.55e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  36 TNGDDFLAQLSEenKIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKL 115
Cdd:PRK10923   34 ENGNEVLEALAS--KTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEA 111

                          90       100
                  ....*....|....*....|
gi 1042790949 116 LQIIkeveERGF--YFEQDQ 133
Cdd:PRK10923  112 VALV----ERAIshYQEQQQ 127
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 25-120 2.89e-05

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


Pssm-ID: 381114 [Multi-domain]  Cd Length: 121  Bit Score: 42.18  E-value: 2.89e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  25 EQEEIEVLSNHTnGDDFLAQLSEenKIPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHYNKSLMGFMLKTGAAA 104
Cdd:cd17572    19 SDEGYKVTHVET-GKEALAFLSD--QPPDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVITAHGSVDIAVEAMRLGAYD 95

                          90
                  ....*....|....*.
gi 1042790949 105 FIPKGVSPKKLLQIIK 120
Cdd:cd17572    96 FLEKPFDADRLRVTVR 111
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 6-121 3.59e-05

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: 41.95  E-value: 3.59e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   6 ISMLDDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLaQLSEENKiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIM 85
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGI-ELAERLD-PDLILLDLNMKGMSGLDTLKALREEGVSARIVIL 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1042790949  86 SSHYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKE 121
Cdd:cd19931    79 TVSDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQ 114
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 9-125 7.03e-05

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: 42.21  E-value: 7.03e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   9 LDDEALIVSLLTNFFEEQEeIEVLSNHTnGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSsh 88
Cdd:COG4567    10 VDDDEAFARVLARALERRG-FEVTTAAS-VEEALALLEQAP--PDYAVLDLRLGDGSGLDLIEALRERDPDARIVVLT-- 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1042790949  89 ynkslmGF--------MLKTGAAAFIPKGVSPKKLLQIIKEVEER 125
Cdd:COG4567    84 ------GYasiataveAIKLGADDYLAKPADADDLLAALERAEGD 122
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 36-122 1.19e-04

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


Pssm-ID: 381124 [Multi-domain]  Cd Length: 117  Bit Score: 40.21  E-value: 1.19e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  36 TNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKL 115
Cdd:cd17593    32 ENGEEALEILREGR--IDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVVSGDVQPEAKERVLELGALAFLKKPFDPEKL 109


                  ....*..
gi 1042790949 116 LQIIKEV 122
Cdd:cd17593   110 AQLLEEL 116
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 10-125 1.27e-04

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: 40.21  E-value: 1.27e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  10 DDEALIVSLLTNFFEEQEEIEVLSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTIIMSSHY 89
Cdd:cd17532     5 DDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELK--PDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVFVTAYD 82

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1042790949  90 NKSLMGFMLKtgAAAFIPKGVSPKKLLQIIKEVEER 125
Cdd:cd17532    83 EYAVEAFELN--AVDYLLKPFSEERLAEALAKLRKR 116
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 4-88 1.48e-04

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: 40.08  E-value: 1.48e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   4 ISISMLDDEALIVSLLTNFFEeQEEIEVLSNhTNGDDFLAQLsEENKIpQILILDLKMEGKSGVDILSILKKDYPSIKTI 83
Cdd:cd17569     1 PTILLVDDEPNILKALKRLLR-REGYEVLTA-TSGEEALEIL-KQEPV-DVVISDQRMPGMDGAELLKRVRERYPDTVRI 76


                  ....*
gi 1042790949  84 IMSSH 88
Cdd:cd17569    77 LLTGY 81
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 10-84 4.15e-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: 38.58  E-value: 4.15e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1042790949  10 DDEALIVSLLTNFFEEQEeIEVLSNHtNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPSIKTII 84
Cdd:cd17563     7 DDDEVFAERLARALERRG-FEVETAH-SVEEALALAREEK--PDYAVLDLRLGGDSGLDLIPPLRALQPDARIVV 77
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 36-122 4.20e-04

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: 38.76  E-value: 4.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949  36 TNGDDFLAQLSEENKIPQILILDLKMEGKSGVDILSILKKDyPSIKTIIMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKL 115
Cdd:cd17584    29 TDAEEALSMLRENKDEFDLVITDVHMPDMDGFEFLELIRLE-MDLPVIMMSADGSTSTVMKGLAHGACDYLLKPVSIEDL 107


                  ....*..
gi 1042790949 116 LQIIKEV 122
Cdd:cd17584   108 KNIWQHV 114
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
3-125 7.29e-04

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 39.70  E-value: 7.29e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   3 AISISMLDDEALIVSLLTnFFEEQEEIEVLSNHtNGDDFLAQLSEenKIPQILILDLKMEGKSGVDILSILKKDYPS--I 80
Cdd:PRK10161    2 ARRILVVEDEAPIREMVC-FVLEQNGFQPVEAE-DYDSAVNQLNE--PWPDLILLDWMLPGGSGIQFIKHLKRESMTrdI 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1042790949  81 KTIIMSSHYNKSLMGFMLKTGAAAFIPKGVSPKKLLQIIKEVEER 125
Cdd:PRK10161   78 PVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRR 122
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 5-125 1.10e-03

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


Pssm-ID: 381166 [Multi-domain]  Cd Length: 116  Bit Score: 37.74  E-value: 1.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   5 SISMLDDEALIVSLLTNFFEeQEEIEVlSNHTNGDDFLAQLSEENkiPQILILDLKMEGKSGVDILSILKKDYPsiKTII 84
Cdd:cd19939     1 RILIVEDELELARLTRDYLI-KAGLEV-SVFTDGQRAVRRIIDEQ--PSLVVLDIMLPGMDGLTVCREVREHSH--VPIL 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1042790949  85 MSSHYNKSLMGFM-LKTGAAAFIPKGVSPKKLLQIIKEVEER 125
Cdd:cd19939    75 MLTARTEEMDRVLgLEMGADDYLCKPFSPRELLARVRALLRR 116
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 52-122 3.70e-03

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


Pssm-ID: 381133 [Multi-domain]  Cd Length: 118  Bit Score: 36.07  E-value: 3.70e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1042790949  52 PQILILDLKMEGKSGVDILSILKKDyPSIKTI--IM----SSHYNKsLMGfmLKTGAAAFIPKGVSPKKLLQIIKEV 122
Cdd:cd17618    45 PDLILLDWMLPGGSGIQFIRRLKRD-EMTRDIpiIMltarGEEEDK-VRG--LEAGADDYITKPFSPRELVARIKAV 117
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 5-121 4.16e-03

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


Pssm-ID: 381127 [Multi-domain]  Cd Length: 133  Bit Score: 36.19  E-value: 4.16e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1042790949   5 SISMLDDEALIVSLLTNFFEEqeEIEVLSNhTNGDDFLAQLSEEnkIPQILILDLKMEGKSGVDILSILKKDYPSIKTII 84
Cdd:cd17596     2 TILVVDDEVRSLEALRRTLEE--DFDVLTA-ASAEEALAILEEE--WVQVILCDQRMPGTTGVEFLKEVRERWPEVVRII 76

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1042790949  85 MSSHYN-KSLMGFMLKTGAAAFIPKGVSPKKLLQIIKE 121
Cdd:cd17596    77 ISGYTDsEDIIAGINEAGIYQYLTKPWHPDQLLLTVRN 114
PRK10100 PRK10100
transcriptional regulator CsgD;
149-213 7.66e-03

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 36.39  E-value: 7.66e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1042790949 149 NLSNDVVLSNREIDVLKLICYQKTAKEIGDELFITKRTVEGHKNNLFLKTETKNIAGLVIYAIQH 213
Cdd:PRK10100  149 NSTESALLTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQAVSWANDN 213
 
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