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Conserved domains on  [gi|1821200032|gb|QIL42234|]
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response regulator transcription factor [Pedobacter sp. HDW13]

Protein Classification

LytR/AlgR family response regulator transcription factor( domain architecture ID 11461715)

LytR/AlgR family response regulator transcription factor with a signal receiver (REC) and a DNA-binding domain may be part of a two-component regulatory system

CATH:  3.40.50.2300|2.40.50.1020
Gene Ontology:  GO:0000160|GO:0000156|GO:0003677
PubMed:  11557134|27013338|18462668|31100988|20226724|16740923|12034833
SCOP:  4003632|4004734

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-249 2.00e-64

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


:

Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 200.81  E-value: 2.00e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLSDGLSFEIFQSVKI---SCPVI 77
Cdd:COG3279     2 MKILIVDDEPLARERLERLLEKY-PDLEVVGEASNGEEALELLEEH-KPDLVFLDIQMPGLDGFELARQLREldpPPPII 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  78 FCTAYGEYAMDAIKANGIDYLLKPFSQEDLQKAFEKVDQFQNFFQQNKlpdmdelikriGPNEGKKSFLVFKHNKYTTVP 157
Cdd:COG3279    80 FTTAYDEYALEAFEVNAVDYLLKPIDEERLAKALEKAKERLEAKAAAE-----------ASPEEKDRIFVKSGGKLVKIP 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032 158 TEQIAFIYIRNDSPTIMTlKEEEYTLNQSLDTIQGQLSALQFFRLNRQYIVNFSAIKEVEHYFDRKLFVKlvipSPEKLL 237
Cdd:COG3279   149 LDDILYIEAEGNYVKIHT-KDKKYLVRKTLKELEEKLPPKQFFRVHRSYIVNLDKIKEIEKNFNGEVVLK----NGEEIP 223

                         250
                  ....*....|..
gi 1821200032 238 IGKEKTTAFLNW 249
Cdd:COG3279   224 VSRRYKKEFKEW 235
 
Name Accession Description Interval E-value
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-249 2.00e-64

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 200.81  E-value: 2.00e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLSDGLSFEIFQSVKI---SCPVI 77
Cdd:COG3279     2 MKILIVDDEPLARERLERLLEKY-PDLEVVGEASNGEEALELLEEH-KPDLVFLDIQMPGLDGFELARQLREldpPPPII 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  78 FCTAYGEYAMDAIKANGIDYLLKPFSQEDLQKAFEKVDQFQNFFQQNKlpdmdelikriGPNEGKKSFLVFKHNKYTTVP 157
Cdd:COG3279    80 FTTAYDEYALEAFEVNAVDYLLKPIDEERLAKALEKAKERLEAKAAAE-----------ASPEEKDRIFVKSGGKLVKIP 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032 158 TEQIAFIYIRNDSPTIMTlKEEEYTLNQSLDTIQGQLSALQFFRLNRQYIVNFSAIKEVEHYFDRKLFVKlvipSPEKLL 237
Cdd:COG3279   149 LDDILYIEAEGNYVKIHT-KDKKYLVRKTLKELEEKLPPKQFFRVHRSYIVNLDKIKEIEKNFNGEVVLK----NGEEIP 223

                         250
                  ....*....|..
gi 1821200032 238 IGKEKTTAFLNW 249
Cdd:COG3279   224 VSRRYKKEFKEW 235
PRK14084 PRK14084
DNA-binding response regulator;
1-221 7.72e-21

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 87.88  E-value: 7.72e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFSeNEQPDLIFMDIQLSD--GLSF-EIFQSVKISCPVI 77
Cdd:PRK14084    1 MKALIVDDEPLARNELTYLLNEI-GGFEEINEAENVKETLEALL-INQYDIIFLDINLMDesGIELaAKIQKMKEPPAII 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  78 FCTAYGEYAMDAIKANGIDYLLKPFSQEDLQKAFEKVDQfqnffQQNKLPDMDELIKRIGPNEGKKSFLVFKHNKYTTVP 157
Cdd:PRK14084   79 FATAHDQFAVKAFELNATDYILKPFEQKRIEQAVNKVRA-----TKAKDDNNASAIANDMSANFDQSLPIEIDDKIHMLN 153

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1821200032 158 TEQIAFIYIRNDSPTIMTLKeEEYTLNQSLDTIQGQLSALQFFRLNRQYIVNFSAIKEVEHYFD 221
Cdd:PRK14084  154 QQDIIAIGVHNGITTIHTTN-HKYETTEPLNRYEKRLNPTYFIRIHRSYIINKKHIKEVEQWFN 216
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 3-114 2.32e-20

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: 83.36  E-value: 2.32e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLS--DGLSF-EIFQSVKISCPVIFC 79
Cdd:cd17532     1 ALIVDDEPLAREELRYLLEEH-PDIEIVGEAENGEEALEAIEEL-KPDVVFLDIQMPglDGLELaKKLSKLAKPPLIVFV 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1821200032  80 TAYGEYAMDAIKANGIDYLLKPFSQEDLQKAFEKV 114
Cdd:cd17532    79 TAYDEYAVEAFELNAVDYLLKPFSEERLAEALAKL 113
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 3-112 4.64e-18

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: 77.19  E-value: 4.64e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKirpKAQVVANLQSIDDAVHYFsENEQPDLIFMDIQLS--DGLSF-EIFQSVKISCPVIFC 79
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEK---EGYVVAEADDGKEALELL-KEERPDLILLDINMPgmDGLELlKRIRRRDPTTPVIIL 76

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1821200032  80 TAYGE--YAMDAIKANGIDYLLKPFSQEDLQKAFE 112
Cdd:pfam00072  77 TAHGDedDAVEALEAGADDFLSKPFDPDELLAAIR 111
LytTR smart00850
LytTr DNA-binding domain; This domain is found in a variety of bacterial transcriptional ...
 151-249 3.34e-13

LytTr DNA-binding domain; This domain is found in a variety of bacterial transcriptional regulators. The domain binds to a specific DNA sequence pattern.


Pssm-ID: 197918 [Multi-domain]  Cd Length: 96  Bit Score: 63.75  E-value: 3.34e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  151 NKYTTVPTEQIAFIYIRNDSPTIMTlKEEEYTLNQSLDTIQGQLSALQFFRLNRQYIVNFSAIKEVEHYFDRKLFVKLVi 230
Cdd:smart00850   1 GRIVLIPLDDILYIEAEGNYVTVHT-KDGTYLVRGTLKELEERLDPDNFFRIHRSYIVNLDHIKEIEPWFNGTYLLILK- 78

                           90
                   ....*....|....*....
gi 1821200032  231 pSPEKLLIGKEKTTAFLNW 249
Cdd:smart00850  79 -NGEEVPVSRRYLKELKER 96
cztR_silR_copR TIGR01387
heavy metal response regulator; Members of this family contain a response regulator receiver ...
 3-107 5.30e-04

heavy metal response regulator; Members of this family contain a response regulator receiver domain (pfam00072) and an associated transcriptional regulatory region (pfam00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system. [Regulatory functions, DNA interactions]


Pssm-ID: 130454 [Multi-domain]  Cd Length: 218  Bit Score: 40.17  E-value: 5.30e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHyFSENEQPDLIFMDIQLSDGLSFEIFQSVKISC---PVIFC 79
Cdd:TIGR01387   1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGR---DGLH-LALKDDYDLIILDVMLPGMDGWQILQTLRRSGkqtPVLFL 76

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1821200032  80 TAYGEYAmDAIKA---NGIDYLLKPFSQEDL 107
Cdd:TIGR01387  77 TARDSVA-DKVKGldlGADDYLVKPFSFSEL 106
 
Name Accession Description Interval E-value
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-249 2.00e-64

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 200.81  E-value: 2.00e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLSDGLSFEIFQSVKI---SCPVI 77
Cdd:COG3279     2 MKILIVDDEPLARERLERLLEKY-PDLEVVGEASNGEEALELLEEH-KPDLVFLDIQMPGLDGFELARQLREldpPPPII 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  78 FCTAYGEYAMDAIKANGIDYLLKPFSQEDLQKAFEKVDQFQNFFQQNKlpdmdelikriGPNEGKKSFLVFKHNKYTTVP 157
Cdd:COG3279    80 FTTAYDEYALEAFEVNAVDYLLKPIDEERLAKALEKAKERLEAKAAAE-----------ASPEEKDRIFVKSGGKLVKIP 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032 158 TEQIAFIYIRNDSPTIMTlKEEEYTLNQSLDTIQGQLSALQFFRLNRQYIVNFSAIKEVEHYFDRKLFVKlvipSPEKLL 237
Cdd:COG3279   149 LDDILYIEAEGNYVKIHT-KDKKYLVRKTLKELEEKLPPKQFFRVHRSYIVNLDKIKEIEKNFNGEVVLK----NGEEIP 223

                         250
                  ....*....|..
gi 1821200032 238 IGKEKTTAFLNW 249
Cdd:COG3279   224 VSRRYKKEFKEW 235
PRK14084 PRK14084
DNA-binding response regulator;
1-221 7.72e-21

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 87.88  E-value: 7.72e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFSeNEQPDLIFMDIQLSD--GLSF-EIFQSVKISCPVI 77
Cdd:PRK14084    1 MKALIVDDEPLARNELTYLLNEI-GGFEEINEAENVKETLEALL-INQYDIIFLDINLMDesGIELaAKIQKMKEPPAII 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  78 FCTAYGEYAMDAIKANGIDYLLKPFSQEDLQKAFEKVDQfqnffQQNKLPDMDELIKRIGPNEGKKSFLVFKHNKYTTVP 157
Cdd:PRK14084   79 FATAHDQFAVKAFELNATDYILKPFEQKRIEQAVNKVRA-----TKAKDDNNASAIANDMSANFDQSLPIEIDDKIHMLN 153

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1821200032 158 TEQIAFIYIRNDSPTIMTLKeEEYTLNQSLDTIQGQLSALQFFRLNRQYIVNFSAIKEVEHYFD 221
Cdd:PRK14084  154 QQDIIAIGVHNGITTIHTTN-HKYETTEPLNRYEKRLNPTYFIRIHRSYIINKKHIKEVEQWFN 216
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 3-114 2.32e-20

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: 83.36  E-value: 2.32e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLS--DGLSF-EIFQSVKISCPVIFC 79
Cdd:cd17532     1 ALIVDDEPLAREELRYLLEEH-PDIEIVGEAENGEEALEAIEEL-KPDVVFLDIQMPglDGLELaKKLSKLAKPPLIVFV 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1821200032  80 TAYGEYAMDAIKANGIDYLLKPFSQEDLQKAFEKV 114
Cdd:cd17532    79 TAYDEYAVEAFELNAVDYLLKPFSEERLAEALAKL 113
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-131 4.58e-20

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 83.10  E-value: 4.58e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFsENEQPDLIFMDIQLSDGLSFEIFQSVK---ISCPVI 77
Cdd:COG4565     4 IRVLIVEDDPMVAELLRRYLERL-PGFEVVGVASSGEEALALL-AEHRPDLILLDIYLPDGDGLELLRELRargPDVDVI 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1821200032  78 FCTAYGEYAM--DAIKANGIDYLLKPFSQEDLQKAFEKVDQFQNFFQQNKLPDMDE 131
Cdd:COG4565    82 VITAARDPETvrEALRAGVVDYLIKPFTFERLREALERYLEYRRLLREDQEEDLPE 137
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 3-112 4.64e-18

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: 77.19  E-value: 4.64e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKirpKAQVVANLQSIDDAVHYFsENEQPDLIFMDIQLS--DGLSF-EIFQSVKISCPVIFC 79
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEK---EGYVVAEADDGKEALELL-KEERPDLILLDINMPgmDGLELlKRIRRRDPTTPVIIL 76

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1821200032  80 TAYGE--YAMDAIKANGIDYLLKPFSQEDLQKAFE 112
Cdd:pfam00072  77 TAHGDedDAVEALEAGADDFLSKPFDPDELLAAIR 111
PRK11697 PRK11697
two-component system response regulator BtsR;
1-217 5.86e-18

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 79.89  E-value: 5.86e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrPKAQVV---AN----LQsiddAVHyfseNEQPDLIFMDIQLSdglsfeifqsvKIS 73
Cdd:PRK11697    2 IKVLIVDDEPLAREELRELLQEE-GDIEIVgecSNaieaIG----AIH----RLKPDVVFLDIQMP-----------RIS 61

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  74 ------------CP-VIFCTAYGEYAMDAIKANGIDYLLKPFSQEDLQKAFEKVDQFQNfFQQNKLPDMDELIKRIgPNE 140
Cdd:PRK11697   62 glelvgmldpehMPyIVFVTAFDEYAIKAFEEHAFDYLLKPIDPARLAKTLARLRQERS-PQDVLLPEAQPPLKHI-PCT 139

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1821200032 141 GkksflvfkHNKYTTVPTEQIAFIYIRNDSPTIMTLKEEEYTlNQSLDTIQGQLSalqFFRLNRQYIVNFSAIKEVE 217
Cdd:PRK11697  140 G--------HNRIKLLPLEEVEFVSSRLSGVHVVSAEGKGFT-ELTLKTLEEKTP---LLRCHRQYLVNPAAIQEIR 204
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 3-114 3.63e-17

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: 75.07  E-value: 3.63e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQSIDDAVHYFsENEQPDLIFMDIQLS--DGLSF-EIFQSVKISCPVIFC 79
Cdd:cd17536     1 VLIVDDEPLIREGLKKLIDWEELGFEVVGEAENGEEALELI-EEHKPDIVITDIRMPgmDGLELiEKIRELYPDIKIIIL 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1821200032  80 TAYG--EYAMDAIKANGIDYLLKPFSQEDLQKAFEKV 114
Cdd:cd17536    80 SGYDdfEYAQKAIRLGVVDYLLKPVDEEELEEALEKA 116
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-137 1.42e-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: 78.08  E-value: 1.42e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIRPKAQVVAnlqSIDDAVHYFsENEQPDLIFMDIQLSDGLSFEIFQSVK---ISCPVI 77
Cdd:COG2204     3 ARILVVDDDPDIRRLLKELLERAGYEVETAA---SGEEALALL-REEPPDLVLLDLRMPGMDGLELLRELRaldPDLPVI 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  78 FCTAYG--EYAMDAIKANGIDYLLKPFSQEDLQKAFEKVDQFQNFFQQNKL--------PDMDELIKRIG 137
Cdd:COG2204    79 LLTGYGdvETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRLRRENAEdsgligrsPAMQEVRRLIE 148
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 1-112 1.93e-14

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


Pssm-ID: 381089 [Multi-domain]  Cd Length: 117  Bit Score: 67.43  E-value: 1.93e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrpKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLS---DG--LSFEIFQsvKISCP 75
Cdd:cd17534     1 KKILIVEDEAIIALDLKEILESL--GYEVVGIADSGEEAIELAEEN-KPDLILMDINLKgdmDGieAAREIRE--KFDIP 75

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1821200032  76 VIFCTAYGEYAM--DAIKANGIDYLLKPFSQEDLQKAFE 112
Cdd:cd17534    76 VIFLTAYSDEETleRAKETNPYGYLVKPFNERELKAAIE 114
LytTR pfam04397
LytTr DNA-binding domain; This domain is found in a variety of bacterial transcriptional ...
 151-251 2.76e-14

LytTr DNA-binding domain; This domain is found in a variety of bacterial transcriptional regulators. The domain binds to a specific DNA sequence pattern.


Pssm-ID: 427920 [Multi-domain]  Cd Length: 98  Bit Score: 66.46  E-value: 2.76e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032 151 NKYTTVPTEQIAFIYIRNDSPTIMTlKEEEYTLNQSLDTIQGQLSALQFFRLNRQYIVNFSAIKEVEHYFDRKLFVKLVi 230
Cdd:pfam04397   1 DRIILVPIDDILYIEAEDKYVTIHT-ANGEYLTRGTLKELEEKLPPDGFFRCHRSYLVNLNKIKEIDPDFNGTYELTLK- 78

                          90       100
                  ....*....|....*....|.
gi 1821200032 231 pSPEKLLIGKEKTTAFLNWLE 251
Cdd:pfam04397  79 -NGEKIPVSRRYLKELKELLG 98
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 2-101 3.41e-14

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: 66.34  E-value: 3.41e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDELKAAKSLSSLINKIRPkAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLS--DGLSF-EIFQSVKISCPVIF 78
Cdd:COG4753     1 KVLIVDDEPLIREGLKRILEWEAG-FEVVGEAENGEEALELLEEH-KPDLVITDINMPgmDGLELlEAIRELDPDTKIII 78

                          90       100
                  ....*....|....*....|....*
gi 1821200032  79 CTAYG--EYAMDAIKANGIDYLLKP 101
Cdd:COG4753    79 LSGYSdfEYAQEAIKLGADDYLLKP 103
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 1-114 7.61e-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: 66.41  E-value: 7.61e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHYFsENEQPDLIFMDIQL--SDGLSF--EIFQSVKI-SCP 75
Cdd:COG0784     6 KRILVVDDNPDNRELLRRLLERLGYEVTTAEDGA---EALELL-RAGPPDLILLDINMpgMDGLELlrRIRALPRLpDIP 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1821200032  76 VIFCTAYG--EYAMDAIKANGIDYLLKPFSQEDLQKAFEKV 114
Cdd:COG0784    82 IIALTAYAdeEDRERALEAGADDYLTKPVDPEELLEALRRL 122
LytTR smart00850
LytTr DNA-binding domain; This domain is found in a variety of bacterial transcriptional ...
 151-249 3.34e-13

LytTr DNA-binding domain; This domain is found in a variety of bacterial transcriptional regulators. The domain binds to a specific DNA sequence pattern.


Pssm-ID: 197918 [Multi-domain]  Cd Length: 96  Bit Score: 63.75  E-value: 3.34e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  151 NKYTTVPTEQIAFIYIRNDSPTIMTlKEEEYTLNQSLDTIQGQLSALQFFRLNRQYIVNFSAIKEVEHYFDRKLFVKLVi 230
Cdd:smart00850   1 GRIVLIPLDDILYIEAEGNYVTVHT-KDGTYLVRGTLKELEERLDPDNFFRIHRSYIVNLDHIKEIEPWFNGTYLLILK- 78

                           90
                   ....*....|....*....
gi 1821200032  231 pSPEKLLIGKEKTTAFLNW 249
Cdd:smart00850  79 -NGEEVPVSRRYLKELKER 96
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-138 3.68e-13

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: 66.73  E-value: 3.68e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrpKAQVVAnLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLSFEIFQSVK-----ISCP 75
Cdd:COG3437     7 PTVLIVDDDPENLELLRQLLRTL--GYDVVT-AESGEEALELLLE-APPDLILLDVRMPGMDGFELLRLLRadpstRDIP 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1821200032  76 VIFCTAYG--EYAMDAIKANGIDYLLKPFSQEDLQKAFEKvdQFQNFFQQNKLPDMDELIKRIGP 138
Cdd:COG3437    83 VIFLTALAdpEDRERALEAGADDYLTKPFDPEELLARVRN--ALELRRLQRELDDLVLYLKLAAP 145
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-114 1.07e-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: 64.54  E-value: 1.07e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHYFsENEQPDLIFMDIQLSDGLSFEIFQSVK-----ISCP 75
Cdd:COG3706     2 ARILVVDDDPTNRKLLRRLLEAAGYEVVEAADGE---EALELL-QEHRPDLILLDLEMPDMDGLELCRRLRadprtADIP 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1821200032  76 VIFCTAYG--EYAMDAIKANGIDYLLKPFSQEDLQKAFEKV 114
Cdd:COG3706    78 IIFLTALDdeEDRARALEAGADDYLTKPFDPEELLARVDLV 118
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 2-113 1.49e-11

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: 59.95  E-value: 1.49e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLSFEIFQSV---KISCPVIF 78
Cdd:cd19925     2 NVLIVEDDPMVAEIHRAYVEQV-PGFTVIGTAGTGEEALKLLKE-RQPDLILLDIYLPDGNGLDLLRELraaGHDVDVIV 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1821200032  79 CTAYGEYAM--DAIKANGIDYLLKPFSQEDLQKAFEK 113
Cdd:cd19925    80 VTAANDVETvrEALRLGVVDYLIKPFTFERLRQRLER 116
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 5-101 1.81e-11

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: 59.16  E-value: 1.81e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   5 IIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHYFSEnEQPDLIFMDIQLSDGLSFEIFQSVK---ISCPVIFCTA 81
Cdd:cd00156     2 IVDDDPAIRELLKSLLEREGYEVDTAADGE---EALELLRE-ERPDLVLLDLMMPGMDGLELLRKLRelpPDIPVIVLTA 77

                          90       100
                  ....*....|....*....|..
gi 1821200032  82 YG--EYAMDAIKANGIDYLLKP 101
Cdd:cd00156    78 KAdeEDAVRALELGADDYLVKP 99
REC_PhyR cd17540
phosphoacceptor receiver (REC) domain of response regulator PhyR and similar proteins; PhyR is ...
 2-110 2.15e-11

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


Pssm-ID: 381095 [Multi-domain]  Cd Length: 117  Bit Score: 59.18  E-value: 2.15e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDELKAAKSLSSLINKIRpkAQVVANLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLS-----FEIFQSVKisCPV 76
Cdd:cd17540     2 RVLIIEDEPLIAMDLEQIVEDLG--HQVVGIARTRDEAVALARR-ERPDLILADIQLADGSSgidavNEILTTHD--VPV 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1821200032  77 IFCTAYGEyamDAIKANGID--YLL-KPFSQEDLQKA 110
Cdd:cd17540    77 IFVTAYPE---RLLTGERPEptFLItKPFDPEMVKAA 110
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-107 2.17e-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: 61.51  E-value: 2.17e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHYFSEnEQPDLIFMDIQLSDGLSFEIFQSVK---ISCPVI 77
Cdd:COG0745     2 PRILVVEDDPDIRELLADALEREGYEVDTAADGE---EALELLEE-ERPDLILLDLMLPGMDGLEVCRRLRarpSDIPII 77

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1821200032  78 FCTAYGEyAMDAIKA--NGID-YLLKPFSQEDL 107
Cdd:COG0745    78 MLTARDD-EEDRVRGleAGADdYLTKPFDPEEL 109
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-112 1.16e-10

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: 59.20  E-value: 1.16e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIRpkAQVVANLQSIDDAVHYFSEnEQPDLIFMDIQLS--DGLSFEIFQSVKISCPVIF 78
Cdd:COG3707     4 LRVLVVDDEPLRRADLREGLREAG--YEVVAEAADGEDAVELVRE-LKPDLVIVDIDMPdrDGLEAARQISEERPAPVIL 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1821200032  79 CTAYGEYAM--DAIKANGIDYLLKPFSQEDLQKAFE 112
Cdd:COG3707    81 LTAYSDPELieRALEAGVSAYLVKPLDPEDLLPALE 116
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 3-114 1.09e-09

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: 54.83  E-value: 1.09e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKiRPKAQVVANLQSIDDAVHYFSEnEQPDLIFMDIQL--SDGLSF-EIFQSVKISCPVIFC 79
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLES-EPDIEVVGEAADGEEALALLRE-LRPDVVLMDLSMpgMDGIEAlRRLRRRYPDLKVIVL 78

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1821200032  80 TAYGE--YAMDAIKAnGID-YLLKPFSQEDLQKAFEKV 114
Cdd:cd17535    79 TAHDDpeYVLRALKA-GAAgYLLKDSSPEELIEAIRAV 115
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 1-114 6.65e-09

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: 52.67  E-value: 6.65e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDelkaAKSLSSLINKIRPKA--QVVANLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLSFEIFQSVKISCP--- 75
Cdd:cd17542     1 KKVLIVDD----AAFMRMMLKDILTKAgyEVVGEAANGEEAVEKYKE-LKPDLVTMDITMPEMDGIEALKEIKKIDPnak 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1821200032  76 VIFCTAYGEYAM--DAIKANGIDYLLKPFSQEDLQKAFEKV 114
Cdd:cd17542    76 VIMCSAMGQEEMvkEAIKAGAKDFIVKPFQPERVLEAVEKV 116
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
2-125 1.67e-08

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 54.47  E-value: 1.67e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHYFSEnEQPDLIFMDIQLS--DGL-SFEIFQSVKISCPVIF 78
Cdd:PRK11361    6 RILIVDDEDNVRRMLSTAFALQGFETHCANNGR---TALHLFAD-IHPDVVLMDIRMPemDGIkALKEMRSHETRTPVIL 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1821200032  79 CTAYGEY--AMDAIKANGIDYLLKPFSQEDLQKAFEKVDQFQNFFQQNK 125
Cdd:PRK11361   82 MTAYAEVetAVEALRCGAFDYVIKPFDLDELNLIVQRALQLQSMKKEIR 130
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 3-107 1.90e-08

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


Pssm-ID: 381114 [Multi-domain]  Cd Length: 121  Bit Score: 51.43  E-value: 1.90e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHYFSENeQPDLIFMDIQLSDGLSFEIFQSVK---ISCPVIFC 79
Cdd:cd17572     1 VLLVEDSPSLAALYQEYLSDEGYKVTHVETGK---EALAFLSDQ-PPDVVLLDLKLPDMSGMEILKWIQersLPTSVIVI 76

                          90       100       110
                  ....*....|....*....|....*....|
gi 1821200032  80 TAYG--EYAMDAIKANGIDYLLKPFSQEDL 107
Cdd:cd17572    77 TAHGsvDIAVEAMRLGAYDFLEKPFDADRL 106
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 3-113 4.08e-08

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: 52.02  E-value: 4.08e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQSIDDAVhyfsENEQPDLIFMDIQLSD--GLSF-EIFQSVKISCPVIFC 79
Cdd:COG4566     2 VYIVDDDEAVRDSLAFLLESAGLRVETFASAEAFLAAL----DPDRPGCLLLDVRMPGmsGLELqEELAARGSPLPVIFL 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1821200032  80 TAYGEYAM--DAIKANGIDYLLKPFSQEDL----QKAFEK 113
Cdd:COG4566    78 TGHGDVPMavRAMKAGAVDFLEKPFDDQALldavRRALAR 117
PRK09191 PRK09191
two-component response regulator; Provisional
 2-84 7.47e-08

two-component response regulator; Provisional


Pssm-ID: 236402 [Multi-domain]  Cd Length: 261  Bit Score: 51.77  E-value: 7.47e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDELKAAKSLSSLINKIrpKAQVVANLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLS-----FEIFQSVKIscPV 76
Cdd:PRK09191  139 RVLIIEDEPIIAMDLEQLVESL--GHRVTGIARTRAEAVALAKK-TRPGLILADIQLADGSSgidavNDILKTFDV--PV 213


                  ....*...
gi 1821200032  77 IFCTAYGE 84
Cdd:PRK09191  214 IFITAFPE 221
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 3-110 1.96e-07

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: 48.23  E-value: 1.96e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHYFSENEqPDLIFMDIQLS--DGLSF--EI--FQSVKISCPV 76
Cdd:cd17546     1 VLVVDDNPVNRKVLKKLLEKLGYEVDVAENGQ---EALELLKEEP-FDLVLMDLQMPvmDGLEAtrRIreLEGGGRRTPI 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1821200032  77 IFCTAYG-----EYAMDAikanGID-YLLKPFSQEDLQKA 110
Cdd:cd17546    77 IALTANAleedrEKCLEA----GMDdYLSKPVKLDQLKEV 112
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 34-115 2.05e-07

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: 49.53  E-value: 2.05e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  34 QSIDDAVHYfSENEQPDLIFMDIQLSDGLSFEIFQSVK---ISCPVIFCTAYG--EYAMDAIKANGIDYLLKPFSQEDLQ 108
Cdd:COG4567    35 ASVEEALAL-LEQAPPDYAVLDLRLGDGSGLDLIEALRerdPDARIVVLTGYAsiATAVEAIKLGADDYLAKPADADDLL 113


                  ....*..
gi 1821200032 109 KAFEKVD 115
Cdd:COG4567   114 AALERAE 120
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 3-113 2.68e-07

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: 47.97  E-value: 2.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQSIDDAVHyfseNEQPDLIFMDIQLS--DGLSF-EIFQSVKISCPVIFC 79
Cdd:cd17537     3 VYVVDDDEAVRDSLAFLLRSVGLAVKTFTSASAFLAAAP----PDQPGCLVLDVRMPgmSGLELqDELLARGSNIPIIFI 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1821200032  80 TAYGEYAM--DAIKANGIDYLLKPFSQEDLQKAFEK 113
Cdd:cd17537    79 TGHGDVPMavEAMKAGAVDFLEKPFRDQVLLDAIEQ 114
PRK13435 PRK13435
response regulator; Provisional
 1-114 2.01e-06

response regulator; Provisional


Pssm-ID: 184052 [Multi-domain]  Cd Length: 145  Bit Score: 46.20  E-value: 2.01e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrpKAQVVANLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLS-FEIFQSVKISC--PVI 77
Cdd:PRK13435    6 LKVLIVEDEALIALELEKLVEEA--GHEVVGIAMSSEQAIALGRR-RQPDVALVDVHLADGPTgVEVARRLSADGgvEVV 82

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1821200032  78 FCTAYGE-YAMDAIKANGIdyLLKPFSQEDLQKAFEKV 114
Cdd:PRK13435   83 FMTGNPErVPHDFAGALGV--IAKPYSPRGVARALSYL 118
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 1-107 2.35e-06

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 47.23  E-value: 2.35e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSslinKIRPKAQVVANLQSIDDAVHYFSENEQPDLIFMDIQLSDGLSFEIFQSVKIS---CPVI 77
Cdd:PRK09836    1 MKLLIVEDEKKTGEYLT----KGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGWDIVRMLRSAnkgMPIL 76

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1821200032  78 FCTAYG--EYAMDAIKANGIDYLLKPFSQEDL 107
Cdd:PRK09836   77 LLTALGtiEHRVKGLELGADDYLVKPFAFAEL 108
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 3-108 2.61e-06

phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family response regulators; Streptococcus agalactiae NsrR is a lantibiotic resistance-associated response regulator and is part of the nisin resistance operon. It is a member of the NsrRK two-component system (TCS) that is involved in the regulation of lantibiotic resistance genes such as a membrane-associated lipoprotein of LanI, and the nsr gene cluster which encodes for the resistance protein NSR and the ABC transporter NsrFP, both conferring resistance against nisin. This subfamily also includes Staphylococcus epidermidis GraR, part of the GraR/GraS TCS involved in resistance against cationic antimicrobial peptides, and Bacillus subtilis BceR, part of the BceS/BceR TCS involved in the regulation of bacitracin resistance. 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: 381143 [Multi-domain]  Cd Length: 113  Bit Score: 45.35  E-value: 2.61e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQSIDDAVhyfsENEQPDLIFMDIQLS--DGLSF--EIFQSVKIscPVIF 78
Cdd:cd18159     1 ILIVEDDETIASLLKKHLEKWGYEVVLIEDFEDVLEEF----LQFKPDLVLLDINLPyfDGFYWcrEIRQISNV--PIIF 74

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1821200032  79 CTAYGEyAMDAIKA---NGIDYLLKPFSQEDLQ 108
Cdd:cd18159    75 ISSRDD-NMDQVMAinmGGDDYITKPFDLDVLL 106
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 1-112 3.49e-06

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: 45.10  E-value: 3.49e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKirPKAQVVANLQSIDDAVHyFSENEQPDLIFMDIQLS--DGL-SFEIFQSVKIScPVI 77
Cdd:cd19932     1 VRVLIAEDEALIRMDLREMLEE--AGYEVVGEASDGEEAVE-LAKKHKPDLVIMDVKMPrlDGIeAAKIITSENIA-PIV 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1821200032  78 FCTAYG--EYAMDAIKANGIDYLLKPFSQEDLQKAFE 112
Cdd:cd19932    77 LLTAYSqqDLVERAKEAGAMAYLVKPFSESDLIPAIE 113
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 35-108 6.43e-06

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


Pssm-ID: 381121 [Multi-domain]  Cd Length: 115  Bit Score: 44.16  E-value: 6.43e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1821200032  35 SIDDAVHYFSENEQP-DLIFMDIQLSDGLSFEIFQSVKISC--PVIFCTAYGE--YAMDAIKANGIDYLLKPFSQEDLQ 108
Cdd:cd17584    30 DAEEALSMLRENKDEfDLVITDVHMPDMDGFEFLELIRLEMdlPVIMMSADGStsTVMKGLAHGACDYLLKPVSIEDLK 108
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
1-113 7.09e-06

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 46.56  E-value: 7.09e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLInkiRPKAQVVANLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLSFEIFQSVKI---SCPVI 77
Cdd:PRK10365    6 IDILVVDDDISHCTILQALL---RGWGYNVALANSGRQALEQVRE-QVFDLVLCDVRMAEMDGIATLKEIKAlnpAIPVL 81

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1821200032  78 FCTAYG--EYAMDAIKANGIDYLLKPFSQEDLQKAFEK 113
Cdd:PRK10365   82 IMTAYSsvETAVEALKTGALDYLIKPLDFDNLQATLEK 119
orf27 CHL00148
Ycf27; Reviewed
 1-108 8.74e-06

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 45.48  E-value: 8.74e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrpkAQVVANLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLSFEIFQSVKISC--PVIF 78
Cdd:CHL00148    7 EKILVVDDEAYIRKILETRLSII---GYEVITASDGEEALKLFRK-EQPDLVILDVMMPKLDGYGVCQEIRKESdvPIIM 82

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1821200032  79 CTAYGEYAmDAIKA---NGIDYLLKPFSQEDLQ 108
Cdd:CHL00148   83 LTALGDVS-DRITGlelGADDYVVKPFSPKELE 114
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 5-107 1.07e-05

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: 43.36  E-value: 1.07e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   5 IIEDElkaaKSLSSLINKI-RPKAQVVANLQSIDDAVHYfSENEQPDLIFMDIQLS--DGlsFEIFQSV---KISCPVIF 78
Cdd:cd17625     2 VVEDE----KDLSEAITKHlKKEGYTVDVCFDGEEGLEY-ALSGIYDLIILDIMLPgmDG--LEVLKSLreeGIETPVLL 74

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1821200032  79 CTAYGEYAmDAIK-----ANgiDYLLKPFSQEDL 107
Cdd:cd17625    75 LTALDAVE-DRVKgldlgAD--DYLPKPFSLAEL 105
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 26-115 1.20e-05

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: 43.42  E-value: 1.20e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  26 KAQVVANLQSIDDAVhyfsENEQPDLIFMDIQLS--DGLSFeiFQSVKI---SCPVIFCTAYG--EYAMDAIKANGIDYL 98
Cdd:cd19919    26 TVTSFENAQEALAAL----ASSQPDVLISDIRMPgmDGLAL--LAQIKQrhpDLPVIIMTAHSdlDSAVSAYQGGAFEYL 99

                          90
                  ....*....|....*..
gi 1821200032  99 LKPFsqeDLQKAFEKVD 115
Cdd:cd19919   100 PKPF---DIDEAVALVE 113
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 45-112 2.01e-05

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: 42.87  E-value: 2.01e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1821200032  45 ENEQPDLIFMDIQLS--DGLSF-EIFQSVKISCPVIFCTAYG--EYAMDAIKANGIDYLLKPFSQEDL----QKAFE 112
Cdd:cd17550    39 KERRPDLVLLDIWLPdmDGLELlKEIKEKYPDLPVIMISGHGtiETAVKATKLGAYDFIEKPLSLDRLlltiERALE 115
dpiA PRK10046
two-component response regulator DpiA; Provisional
 1-125 2.02e-05

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 44.62  E-value: 2.02e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIRPKAQV--VANLQSIDDAVHYFseneQPDLIFMDIQLSDG----LSFEIFQSvKISC 74
Cdd:PRK10046    5 LTLLIVEDETPLAEMHAEYIRHIPGFSQIllAGNLAQARMMIERF----KPGLILLDNYLPDGrginLLHELVQA-HYPG 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1821200032  75 PVIFCTAYG--EYAMDAIKANGIDYLLKPFsqedlqkAFEKVDQFQNFFQQNK 125
Cdd:PRK10046   80 DVVFTTAASdmETVSEAVRCGVFDYLIKPI-------AYERLGQTLTRFRQRK 125
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 1-113 2.40e-05

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: 42.76  E-value: 2.40e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKIrPKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLS--DGLSF--EIFQsvKISCPV 76
Cdd:cd17541     1 IRVLIVDDSAVMRKLLSRILESD-PDIEVVGTARDGEEALEKIKEL-KPDVITLDIEMPvmDGLEAlrRIMA--ERPTPV 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1821200032  77 IFCTAY----GEYAMDAIKANGIDYLLKPFS--QEDLQKAFEK 113
Cdd:cd17541    77 VMVSSLteegAEITLEALELGAVDFIAKPSGgiSLDLEEIAEE 119
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 3-108 2.99e-05

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: 42.27  E-value: 2.99e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAvHYFSENEQPDLIFMDIQLS--DGLS-FEIFQSVKISCPVIFC 79
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDAGYVVDVAEDGE---EA-LFQGEEEPYDLVVLDLGLPgmDGLSvLRRWRSEGRATPVLIL 76

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1821200032  80 TAYGEYA--MDAIKANGIDYLLKPFSQEDLQ 108
Cdd:cd19934    77 TARDSWQdkVEGLDAGADDYLTKPFHIEELL 107
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 1-58 3.10e-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: 40.63  E-value: 3.10e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1821200032    1 MKIIIIEDELKAAKSLSSLINKIRPKAQVVANLQSIDDAVhyfsENEQPDLIFMDIQL 58
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELL----KEEKPDLILLDIMM 54
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 45-89 4.16e-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: 41.82  E-value: 4.16e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1821200032  45 ENEQPDLIFMDIQLS--DGLSF-EIFQSVKISCPVIFCTAYGEYAMDA 89
Cdd:cd17554    41 ESEDPDLVILDIKMPgmDGLETlRKIREKKPDLPVIICTAYSEYKSDF 88
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 50-101 5.52e-05

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: 40.98  E-value: 5.52e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1821200032  50 DLIFMDIQLSDGLSFEIFQSVKISC---PVIFCTAYG--EYAMDAIKANGIDYLLKP 101
Cdd:cd19926    44 DLCLTDMRLPDGSGLELVQHIQQRLpqtPVAVITAYGslDTAIEALKAGAFDFLTKP 100
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 2-107 6.08e-05

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: 41.20  E-value: 6.08e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHYFSEnEQPDLIFMDIQL--SDGLsfEIFQSVK--ISCPVI 77
Cdd:cd19939     1 RILIVEDELELARLTRDYLIKAGLEVSVFTDGQ---RAVRRIID-EQPSLVVLDIMLpgMDGL--TVCREVRehSHVPIL 74

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1821200032  78 FCTAYGEyAMDAI---KANGIDYLLKPFSQEDL 107
Cdd:cd19939    75 MLTARTE-EMDRVlglEMGADDYLCKPFSPREL 106
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 49-107 1.23e-04

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: 40.41  E-value: 1.23e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1821200032  49 PDLIFMDIQLSDGLSFEIFQSVK---ISCPVIFCTAYgEYAMDAIK---ANGIDYLLKPFSQEDL 107
Cdd:cd17615    44 PDAVVLDIMLPDMDGLEVLRRLRadgPDVPVLFLTAK-DSVEDRIAgltAGGDDYVTKPFSLEEV 107
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 2-103 1.46e-04

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


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 40.44  E-value: 1.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDELKAAKSLsslINKIRPKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQL--SDGLSF--EIFQSVKIscPVI 77
Cdd:cd19938     1 RILIVEDEPKLAQLL---IDYLRAAGYAPTLLAHGDQVLPYVRHT-PPDLILLDLMLpgTDGLTLcrEIRRFSDV--PII 74

                          90       100
                  ....*....|....*....|....*....
gi 1821200032  78 FCTAYGEyAMD---AIKANGIDYLLKPFS 103
Cdd:cd19938    75 MVTARVE-EIDrllGLELGADDYICKPYS 102
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-61 1.57e-04

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: 40.65  E-value: 1.57e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKiRPKAQVVANLQSIDDAVHYFsENEQPDLIFMDIQLSDG 61
Cdd:COG2197     2 IRVLIVDDHPLVREGLRALLEA-EPDIEVVGEAADGEEALELL-EELRPDVVLLDIRMPGM 60
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 45-113 1.67e-04

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


Pssm-ID: 381100 [Multi-domain]  Cd Length: 115  Bit Score: 40.22  E-value: 1.67e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  45 ENEQPDLIFMDIQLS--DGLsfEIFQSVK-----ISCPVIFCTAygeYAM----DAIKANGID-YLLKPFSQEDLQKAFE 112
Cdd:cd17548    40 RKEKPDLILMDIQLPgmDGL--EATRLLKedpatRDIPVIALTA---YAMkgdrEKILEAGCDgYISKPIDTREFLETVA 114


                  .
gi 1821200032 113 K 113
Cdd:cd17548   115 K 115
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 45-102 2.43e-04

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


Pssm-ID: 381147 [Multi-domain]  Cd Length: 103  Bit Score: 39.42  E-value: 2.43e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1821200032  45 ENEQPDLIFMDIQLS--DGlsFEIFQSVKI-----SCPVIFCTAYGEyAMDAIKA---NGIDYLLKPF 102
Cdd:cd19920    39 QAEPPDLILLDVMMPgmDG--FEVCRRLKAdpatrHIPVIFLTALTD-TEDKVKGfelGAVDYITKPF 103
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 2-113 2.59e-04

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


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 39.46  E-value: 2.59e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDELKAAKSLSSLINKIRPKAQVVAN-LQSIDdavhyFSENEQPDLIFMDIQLSDGLSFEIFQSVKI---SCPVI 77
Cdd:cd17553     2 KILIVDDQYGIRILLNEVFNKEGYQTFQAANgLQALD-----IVTKERPDLVLLDMKIPGMDGIEILKRMKVideNIRVI 76

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1821200032  78 FCTAYGEYAM--DAIKANGIDYLLKPFSQEDLQKAFEK 113
Cdd:cd17553    77 IMTAYGELDMiqESKELGALTHFAKPFDIDEIRDAVKK 114
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 3-114 2.92e-04

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: 39.56  E-value: 2.92e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINkIRPKAQVVANLQSIDDAVHyFSENEQPDLIFMDIQLS--DGL-SFEIFQSVKISCPVIFC 79
Cdd:cd19930     1 VLIAEDQEMVRGALAALLE-LEDDLEVVAQASNGQEALR-LVLKHSPDVAILDIEMPgrTGLeVAAELREELPDTKVLIV 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1821200032  80 TAYGE--YAMDAIKANGIDYLLKPFSQEDLQKAFEKV 114
Cdd:cd19930    79 TTFGRpgYFRRALAAGVDGYVLKDRPIEELADAIRTV 115
REC_TPR cd17589
phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...
 3-109 3.55e-04

phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR)-containing response regulators; Response regulators share the common phosphoacceptor REC domain and different output domains. This subfamily contains uncharacterized response regulators with TPR repeats as the effector or output domain, which might contain between 3 to 16 TPR repeats (each about 34 amino acids). TPR-containing proteins occur in all domains of life and the abundance of TPR-containing proteins in a bacterial proteome is not indicative of virulence. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Some members in this subfamily may contain inactive REC domains lacking canonical metal-binding and active site residues.


Pssm-ID: 381123 [Multi-domain]  Cd Length: 115  Bit Score: 39.17  E-value: 3.55e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIrpkaqvvaNLQSIDDAVH-----YFSENEQPDLIFMDIQLSDGLS-FEIFQSVKI---- 72
Cdd:cd17589     1 FLIVDDQPTFRSMLKSMLRSL--------GVTRIDTASSgeealRMCENKTYDIVLCDYNLGKGKNgQQLLEELRHkkli 72

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1821200032  73 --SCPVIFCTAYGEYAM--DAIKANGIDYLLKPFSQEDLQK 109
Cdd:cd17589    73 spSTVFIMVTGESSRAMvlSALELEPDDYLLKPFTVSELRE 113
REC_HP-RR-like cd17573
phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; ...
 3-103 5.13e-04

phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; Helicobacter pylori response regulator hp1043 (HP-RR) is an orphan response regulator which is phosphorylation-independent and is essential for growth. HP-RR functions as a cell growth-associated regulator in the absence of post-translational modification. Members of this subfamily contain REC and DNA-binding output domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381115 [Multi-domain]  Cd Length: 110  Bit Score: 38.57  E-value: 5.13e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQSIDdavhYFSENEQPDLIFMDIQLSDGLSFEIFQSVKI---SCPVIFC 79
Cdd:cd17573     1 ILLIEDDSTLGKEISKGLNEKGYQADVAESLKDGE----YYIDIRNYDLVLVSDKLPDGNGLSIVSRIKEkhpSIVVIVL 76

                          90       100
                  ....*....|....*....|....*.
gi 1821200032  80 TA--YGEYAMDAIKANGIDYLLKPFS 103
Cdd:cd17573    77 SDnpKTEQEIEAFKEGADDYIAKPFD 102
cztR_silR_copR TIGR01387
heavy metal response regulator; Members of this family contain a response regulator receiver ...
 3-107 5.30e-04

heavy metal response regulator; Members of this family contain a response regulator receiver domain (pfam00072) and an associated transcriptional regulatory region (pfam00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system. [Regulatory functions, DNA interactions]


Pssm-ID: 130454 [Multi-domain]  Cd Length: 218  Bit Score: 40.17  E-value: 5.30e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIRPKAQVVANLQsidDAVHyFSENEQPDLIFMDIQLSDGLSFEIFQSVKISC---PVIFC 79
Cdd:TIGR01387   1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGR---DGLH-LALKDDYDLIILDVMLPGMDGWQILQTLRRSGkqtPVLFL 76

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1821200032  80 TAYGEYAmDAIKA---NGIDYLLKPFSQEDL 107
Cdd:TIGR01387  77 TARDSVA-DKVKGldlGADDYLVKPFSFSEL 106
REC_PFxFATGY cd17586
phosphoacceptor receiver (REC) domain of PFxFATGY motif single-domain (stand-alone) response ...
 3-112 6.13e-04

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


Pssm-ID: 381122 [Multi-domain]  Cd Length: 111  Bit Score: 38.60  E-value: 6.13e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKIrpKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLSDGLSFEIFQSVKIS-CPVIFCTA 81
Cdd:cd17586     1 VLVLEDEPLIAMNLEDALEDL--GGKEVVTAATCAEALRSLADG-PIDIAILDVNLGGETSIPVADALKRRaIPFIFATG 77

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1821200032  82 YGEYAMDAIKANGIDYLLKPFSQEDLQKAFE 112
Cdd:cd17586    78 YGDSHGIDSRLIDVPVLRKPFDADSALAALA 108
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
2-107 7.98e-04

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 39.70  E-value: 7.98e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDELKAAKSLSSLI--NKIRPkaqvvANLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLSFEIFQSVKISC----- 74
Cdd:PRK10161    4 RILVVEDEAPIREMVCFVLeqNGFQP-----VEAEDYDSAVNQLNE-PWPDLILLDWMLPGGSGIQFIKHLKRESmtrdi 77

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1821200032  75 PVIFCTAYGEYA--MDAIKANGIDYLLKPFSQEDL 107
Cdd:PRK10161   78 PVVMLTARGEEEdrVRGLETGADDYITKPFSPKEL 112
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 45-108 8.40e-04

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: 38.23  E-value: 8.40e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032  45 ENEQPDLIFMDIQLSDGLSFEIFQSV---KISCPVIFCTAYGEYAmDAIK---ANGIDYLLKPFSQEDLQ 108
Cdd:cd17624    39 ASGPYDLVILDLGLPDGDGLDLLRRWrrqGQSLPVLILTARDGVD-DRVAgldAGADDYLVKPFALEELL 107
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 1-111 9.31e-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: 37.81  E-value: 9.31e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDELKAAKSLSSLINKirpKAQVVANLQSIDDAVHYFSENeQPDLIFMDIQLSDGLSFEIFQSVKISCP---VI 77
Cdd:cd17563     1 KSLLLVDDDEVFAERLARALER---RGFEVETAHSVEEALALAREE-KPDYAVLDLRLGGDSGLDLIPPLRALQPdarIV 76

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1821200032  78 FCTAYGEY--AMDAIKANGIDYLLKPFSQEDLQKAF 111
Cdd:cd17563    77 VLTGYASIatAVEAIKLGADDYLAKPADADEILAAL 112
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 5-101 9.39e-04

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: 37.39  E-value: 9.39e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   5 IIEDELKAAKSLSSLINKIRPKAQVVANlqsIDDAVHYFsENEQPDLIFMDIQL--SDGLSF--EIfQSVKISCPVIFCT 80
Cdd:cd17574     2 VVEDDEEIAELLSDYLEKEGYEVDTAAD---GEEALELA-REEQPDLIILDVMLpgMDGFEVcrRL-REKGSDIPIIMLT 76

                          90       100
                  ....*....|....*....|....
gi 1821200032  81 AYGEyAMDAIKANGI---DYLLKP 101
Cdd:cd17574    77 AKDE-EEDKVLGLELgadDYITKP 99
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 75-113 1.15e-03

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: 37.85  E-value: 1.15e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1821200032  75 PVIFCTAYGEYAM--DAIKANGIDYLLKPFSQEDL----QKAFEK 113
Cdd:cd17549    72 PVILITGHGDVPMavEAMRAGAYDFLEKPFDPERLldvvRRALEK 116
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 48-108 1.45e-03

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 39.02  E-value: 1.45e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1821200032  48 QPDLIFMDIQLSDGLSFEIFQSVK--ISCPVIFCTAYGEYA--MDAIKANGIDYLLKPFSQEDLQ 108
Cdd:PRK10529   45 KPDLIILDLGLPDGDGIEFIRDLRqwSAIPVIVLSARSEESdkIAALDAGADDYLSKPFGIGELQ 109
PRK10643 PRK10643
two-component system response regulator PmrA;
1-108 2.27e-03

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 38.09  E-value: 2.27e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   1 MKIIIIEDE-------LKAAKSLSSLINKIRPKAQVVANLQSiddaVHYfseneqpDLIFMDIQL--SDGLSF-EIFQSV 70
Cdd:PRK10643    1 MKILIVEDDtlllqglILALQTEGYACDCASTAREAEALLES----GHY-------SLVVLDLGLpdEDGLHLlRRWRQK 69

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1821200032  71 KISCPVIFCTAYG--EYAMDAIKANGIDYLLKPFSQEDLQ 108
Cdd:PRK10643   70 KYTLPVLILTARDtlEDRVAGLDVGADDYLVKPFALEELH 109
PRK15369 PRK15369
two component system response regulator;
2-120 2.34e-03

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 38.14  E-value: 2.34e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   2 KIIIIEDElkaakslSSLINKIR------PKAQVVAnlqSIDD--AVHYFSENEQPDLIFMDIQLS--DGLsfEIFQSVK 71
Cdd:PRK15369    5 KILLVDDH-------ELIINGIKnmlapyPRYKIVG---QVDNglEVYNACRQLEPDIVILDLGLPgmNGL--DVIPQLH 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1821200032  72 ISCP---VIFCTAYGE--YAMDAIKANGIDYLLKPFSQEDLQKAFEKVDQFQNF 120
Cdd:PRK15369   73 QRWPamnILVLTARQEehMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRY 126
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 3-110 2.90e-03

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: 36.67  E-value: 2.90e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLInkiRPKAQVVANLQSIDDAVHYFsENEQPDLIFMDIQLS--DGLSF-----EIFQSVKIscP 75
Cdd:cd17580     1 ILVVDDNEDAAEMLALLL---ELEGAEVTTAHSGEEALEAA-QRFRPDVILSDIGMPgmDGYELarrlrELPWLANT--P 74

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1821200032  76 VIFCTAYG-EYAMDAIKANGID-YLLKPFSQEDLQKA 110
Cdd:cd17580    75 AIALTGYGqPEDRERALEAGFDaHLVKPVDPDELIEL 111
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 37-102 3.60e-03

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: 36.17  E-value: 3.60e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1821200032  37 DDAVHYFSENEQPDLIFMDIQLSDGLS-FEIFQSVKISCP---VIFCTAYGEYAMDAIK-ANGIDYLLKPF 102
Cdd:cd18161    32 DEALDLLESGPDIDLLVTDVIMPGGMNgSQLAEEARRRRPdlkVLLTSGYAENAIEGGDlAPGVDVLSKPF 102
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 45-107 4.05e-03

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


Pssm-ID: 381164 [Multi-domain]  Cd Length: 116  Bit Score: 36.10  E-value: 4.05e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1821200032  45 ENEQPDLIFMDIQLS--DGLSF--EIFQSVKIS-CPVIFCTAYGEyamDAIKANGI-----DYLLKPFSQEDL 107
Cdd:cd19937    38 KDEKPDLIILDLMLPgiDGLEVcrILRSDPKTSsIPIIMLTAKGE---EFDKVLGLelgadDYITKPFSPREL 107
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 46-107 4.92e-03

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: 35.74  E-value: 4.92e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1821200032  46 NEQPDLIFMDIQLSDGLSFEIFQSVKIS--CPVIFCTAYGEyAMDAI---KANGIDYLLKPFSQEDL 107
Cdd:cd17623    40 EGSPDLVVLDVMLPKMNGLDVLKELRKTsqVPVLMLTARGD-DIDRIlglELGADDYLPKPFNPREL 105
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 3-108 7.50e-03

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


Pssm-ID: 381130 [Multi-domain]  Cd Length: 115  Bit Score: 35.48  E-value: 7.50e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1821200032   3 IIIIEDELKAAKSLSSLINKirpKAQVVANLQSIDDAVHYFSEnEQPDLIFMDIQLSDGLSFEIFQSV--KISCPVIFCT 80
Cdd:cd17614     1 ILVVDDEKPISDILKFNLTK---EGYEVVTAYDGREALEKVEE-EQPDLILLDLMLPEKDGLEVCREVrkTSNVPIIMLT 76

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1821200032  81 AYGEyAMDAI---KANGIDYLLKPFSQEDLQ 108
Cdd:cd17614    77 AKDS-EVDKVlglELGADDYVTKPFSNRELL 106
 
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.
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