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Conserved domains on  [gi|1621036571|ref|WP_136086919|]
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transcriptional regulator UhpA [Klebsiella variicola]

Protein Classification

response regulator transcription factor UhpA( domain architecture ID 11484674)

two-component system rresponse regulator transcription factor UhpA binds DNA upon phosphorylation and functions as transcriptional regulator, as part of the UhpABC signaling cascade that controls expression of the hexose phosphate transporter UhpT

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10360 PRK10360
transcriptional regulator UhpA;
1-196 1.25e-148

transcriptional regulator UhpA;


:

Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 410.14  E-value: 1.25e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSV 80
Cdd:PRK10360    1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDIAMKLAAGRQDPLTKRERQVAEKLAQGMAVKEIAA 160
Cdd:PRK10360   81 HDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASGRQDPLTKRERQVAEKLAQGMAVKEIAA 160

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1621036571 161 ELGLSPKTVHVHRANLLEKLGVSNDVELARRMFDSW 196
Cdd:PRK10360  161 ELGLSPKTVHVHRANLMEKLGVSNDVELARRMFDGW 196
 
Name Accession Description Interval E-value
PRK10360 PRK10360
transcriptional regulator UhpA;
1-196 1.25e-148

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 410.14  E-value: 1.25e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSV 80
Cdd:PRK10360    1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDIAMKLAAGRQDPLTKRERQVAEKLAQGMAVKEIAA 160
Cdd:PRK10360   81 HDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASGRQDPLTKRERQVAEKLAQGMAVKEIAA 160

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1621036571 161 ELGLSPKTVHVHRANLLEKLGVSNDVELARRMFDSW 196
Cdd:PRK10360  161 ELGLSPKTVHVHRANLMEKLGVSNDVELARRMFDGW 196
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 3-193 1.14e-40

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: 136.38  E-value: 1.14e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGlEADFQiVAEFGSGREALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMATIMLS 79
Cdd:COG4566     1 TVYIVDDDEAVRDSLAFLLE-SAGLR-VETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELqeeLAARGSPLPVIFLT 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  80 VHDSPALIEQALNAGARGFLSKRCSPDELIAAVRT-VAAGGCYLTPDIAMKLAAGRQDPLTKRERQVAEKLAQGMAVKEI 158
Cdd:COG4566    79 GHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRaLARDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNKQI 158

                         170       180       190
                  ....*....|....*....|....*....|....*
gi 1621036571 159 AAELGLSPKTVHVHRANLLEKLGVSNDVELARRMF 193
Cdd:COG4566   159 ARELGISPRTVEVHRANVMEKLGARSLAELVRLAL 193
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-117 1.49e-40

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: 133.79  E-value: 1.49e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIMLSV 80
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRrypDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-113 8.93e-30

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: 106.08  E-value: 8.93e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEAdfQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMATIMLSV 80
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEG--YVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIrrrDPTTPVIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 136-191 7.62e-22

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 84.12  E-value: 7.62e-22
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1621036571  136 DPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELARR 191
Cdd:smart00421   2 ASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 138-180 1.61e-04

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 40.41  E-value: 1.61e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1621036571 138 LTKRERQVAE-KLAQGMAVKEIAAELGLSPKTVHVHRANLLEKL 180
Cdd:TIGR02937 111 LPEREREVLVlRYLEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
 
Name Accession Description Interval E-value
PRK10360 PRK10360
transcriptional regulator UhpA;
1-196 1.25e-148

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 410.14  E-value: 1.25e-148
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSV 80
Cdd:PRK10360    1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKGMATIMLSV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDIAMKLAAGRQDPLTKRERQVAEKLAQGMAVKEIAA 160
Cdd:PRK10360   81 HDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASGRQDPLTKRERQVAEKLAQGMAVKEIAA 160

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1621036571 161 ELGLSPKTVHVHRANLLEKLGVSNDVELARRMFDSW 196
Cdd:PRK10360  161 ELGLSPKTVHVHRANLMEKLGVSNDVELARRMFDGW 196
PRK09483 PRK09483
response regulator; Provisional
 1-190 2.01e-41

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 139.09  E-value: 2.01e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIM 77
Cdd:PRK09483    1 MINVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRytpDVKIIM 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDIAMKLAAGRQDP--------LTKRERQVAEKL 149
Cdd:PRK09483   81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEPatenpfasLSERELQIMLMI 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 1621036571 150 AQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELAR 190
Cdd:PRK09483  161 TKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTH 201
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 3-193 1.14e-40

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: 136.38  E-value: 1.14e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGlEADFQiVAEFGSGREALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMATIMLS 79
Cdd:COG4566     1 TVYIVDDDEAVRDSLAFLLE-SAGLR-VETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELqeeLAARGSPLPVIFLT 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  80 VHDSPALIEQALNAGARGFLSKRCSPDELIAAVRT-VAAGGCYLTPDIAMKLAAGRQDPLTKRERQVAEKLAQGMAVKEI 158
Cdd:COG4566    79 GHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRaLARDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNKQI 158

                         170       180       190
                  ....*....|....*....|....*....|....*
gi 1621036571 159 AAELGLSPKTVHVHRANLLEKLGVSNDVELARRMF 193
Cdd:COG4566   159 ARELGISPRTVEVHRANVMEKLGARSLAELVRLAL 193
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-117 1.49e-40

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: 133.79  E-value: 1.49e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIMLSV 80
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRrypDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 3-189 3.59e-38

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 130.92  E-value: 3.59e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL-PKGMAT--IMLS 79
Cdd:PRK10651    8 TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLrEKSLSGriVVFS 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  80 VHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDIAMKLAAG-RQDP---------LTKRERQVAEKL 149
Cdd:PRK10651   88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASlRANRatterdvnqLTPRERDILKLI 167

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1621036571 150 AQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELA 189
Cdd:PRK10651  168 AQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAA 207
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-191 6.01e-35

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: 120.00  E-value: 6.01e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLpkgmatimlsv 80
Cdd:COG2197     1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  81 hdspalieqalnagargflskrcspdeliaavrtvaaggcyltpdiamklaagrqdpLTKRERQVAEKLAQGMAVKEIAA 160
Cdd:COG2197    70 ---------------------------------------------------------LTPREREVLRLLAEGLSNKEIAE 92

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1621036571 161 ELGLSPKTVHVHRANLLEKLGVSNDVELARR 191
Cdd:COG2197    93 RLGISERTVKTHVSNILRKLGVRNRTELVLL 123
fixJ PRK09390
response regulator FixJ; Provisional
 3-190 3.44e-31

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 112.40  E-value: 3.44e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGlEADFQIVAeFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLP---KGMATIMLS 79
Cdd:PRK09390    5 VVHVVDDDEAMRDSLAFLLD-SAGFEVRL-FESAQAFLDALPGLRFGCVVTDVRMPGIDGIELLRRLKargSPLPVIVMT 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  80 VHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTV------AAGGCYLTPDIAMKLAAgrqdpLTKRERQVAEKLAQGM 153
Cdd:PRK09390   83 GHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERAlaqapeAAKSEAVAADIRARIAS-----LSERERQVMDGLVAGL 157

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1621036571 154 AVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELAR 190
Cdd:PRK09390  158 SNKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVR 194
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
4-186 3.57e-30

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 110.33  E-value: 3.57e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT---IMLSV 80
Cdd:PRK10403    9 VLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTaqiIILTV 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDI-----AMKLAAGRQDP---LTKRERQVAEKLAQG 152
Cdd:PRK10403   89 SDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVnqylrEREMFGAEEDPfsvLTERELDVLHELAQG 168

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1621036571 153 MAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDV 186
Cdd:PRK10403  169 LSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRV 202
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-113 8.93e-30

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: 106.08  E-value: 8.93e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEAdfQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMATIMLSV 80
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEG--YVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIrrrDPTTPVIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
PRK15369 PRK15369
two component system response regulator;
2-192 5.16e-28

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 104.39  E-value: 5.16e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIML 78
Cdd:PRK15369    4 YKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQrwpAMNILVL 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDI-------AMKLAAGRQDPLTKRERQVAEKLAQ 151
Cdd:PRK15369   84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALnreailaLLNADDTNPPLLTPRERQILKLITE 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 1621036571 152 GMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVEL---ARRM 192
Cdd:PRK15369  164 GYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELlnwARRL 207
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
2-188 6.70e-25

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 96.48  E-value: 6.70e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLS---QLPKGMATIML 78
Cdd:PRK09935    4 ASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKrikQIQSTVKVLFL 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDIAMKLAAGRQD-------PLTKRERQVAEKLAQ 151
Cdd:PRK09935   84 SSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETLNYIKSNKCStnsstdtVLSNREVTILRYLVS 163

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1621036571 152 GMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVEL 188
Cdd:PRK09935  164 GLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVEL 200
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-181 3.44e-23

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: 91.56  E-value: 3.44e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGlEADFQiVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMATIM 77
Cdd:COG0745     1 MPRILVVEDDPDIRELLADALE-REGYE-VDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLrarPSDIPIIM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVA--------AGGCYLTPDIAMKLAAGRQDPLTKRERQVAEKL 149
Cdd:COG0745    79 LTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLrrraaevlRVGDLLDLAAREVTRDGEPVELTPKEFRLLELL 158

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1621036571 150 AQ--GMAV------KEIAAELGLSPKTVHVHRANLLEKLG 181
Cdd:COG0745   159 MRnpGRVVsreqllEEVWGYDYGDDRTVDVHISRLRKKLE 198
GerE pfam00196
Bacterial regulatory proteins, luxR family;
136-192 4.04e-22

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 84.56  E-value: 4.04e-22
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1621036571 136 DPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELARRM 192
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 136-191 7.62e-22

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 84.12  E-value: 7.62e-22
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1621036571  136 DPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELARR 191
Cdd:smart00421   2 ASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-117 1.26e-21

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: 90.79  E-value: 1.26e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGlEADFQiVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMATIM 77
Cdd:COG2204     2 MARILVVDDDPDIRRLLKELLE-RAGYE-VETAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELralDPDLPVIL 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:COG2204    80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALE 119
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
1-188 7.62e-21

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 85.72  E-value: 7.62e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIaLIDDHLIVRSGFAQLLgLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT---IM 77
Cdd:PRK09958    1 MNAI-IIDDHPLAIAAIRNLL-IKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSgiiII 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYL-----TPDIAMKLAAGRQDPLTKRERQVAEKLAQG 152
Cdd:PRK09958   79 VSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFpfslnRFVGSLTSDQQKLDSLSKQEISVMRYILDG 158

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1621036571 153 MAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVEL 188
Cdd:PRK09958  159 KDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDL 194
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 6-101 2.46e-20

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: 81.36  E-value: 2.46e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   6 LIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMATIMLSVHD 82
Cdd:COG4753     4 IVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIrelDPDTKIIILSGYS 83

                          90
                  ....*....|....*....
gi 1621036571  83 SPALIEQALNAGARGFLSK 101
Cdd:COG4753    84 DFEYAQEAIKLGADDYLLK 102
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 4-117 4.54e-20

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: 81.16  E-value: 4.54e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIMLSV 80
Cdd:cd19930     1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREelpDTKVLIVTT 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:cd19930    81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 3-115 1.18e-19

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: 82.91  E-value: 1.18e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGlEADFQIVaEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL-----PKGMATIM 77
Cdd:COG3437     8 TVLIVDDDPENLELLRQLLR-TLGYDVV-TAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLradpsTRDIPVIF 85

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTV 115
Cdd:COG3437    86 LTALADPEDRERALEAGADDYLTKPFDPEELLARVRNA 123
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 138-194 1.54e-19

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


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 77.96  E-value: 1.54e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1621036571 138 LTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELARRMFD 194
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 134-191 1.97e-19

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


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 78.08  E-value: 1.97e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1621036571 134 RQDPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELARR 191
Cdd:COG5905     9 HPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVW 66
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 1-188 5.62e-19

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 81.03  E-value: 5.62e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALI--DDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMP-DI--SGLELLSQLPK---G 72
Cdd:PRK10840    1 MNNMNVIiaDDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMPgDKygDGITLIKYIKRhfpS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  73 MATIMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYlTPDIAMKL-----AAGRQD-PLTKRERQVA 146
Cdd:PRK10840   81 LSIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKF-TPESVSRLlekisAGGYGDkRLSPKESEVL 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1621036571 147 EKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVEL 188
Cdd:PRK10840  160 RLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIAL 201
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-154 2.64e-18

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: 78.41  E-value: 2.64e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGlEADFQIVaEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMAT-- 75
Cdd:COG3706     1 PARILVVDDDPTNRKLLRRLLE-AAGYEVV-EAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLradPRTADIpi 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  76 IMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGG----CYLTPDIAMKLAagrqdpltkreRQVAEKLAQ 151
Cdd:COG3706    79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVARYGgeefAILLPGTDLEGA-----------LAVAERIRE 147


                  ...
gi 1621036571 152 GMA 154
Cdd:COG3706   148 AVA 150
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 4-113 5.11e-18

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: 75.99  E-value: 5.11e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEaDFQiVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIMLSV 80
Cdd:cd17549     1 VLLVDDDADVREALQQTLELA-GFR-VRAFADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIREldpDLPVILITG 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:cd17549    79 HGDVPMAVEAMRAGAYDFLEKPFDPERLLDVVR 111
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 3-118 5.73e-18

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: 76.04  E-value: 5.73e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGlEADFQIVaEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMAT--IM 77
Cdd:COG0784     7 RILVVDDNPDNRELLRRLLE-RLGYEVT-TAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIralPRLPDIpiIA 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAG 118
Cdd:COG0784    85 LTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLAR 125
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 6-101 9.49e-18

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: 74.57  E-value: 9.49e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   6 LIDDHLIVRSGFAQLLglEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMATIMLSVHD 82
Cdd:cd00156     2 IVDDDPAIRELLKSLL--EREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLrelPPDIPVIVLTAKA 79

                          90
                  ....*....|....*....
gi 1621036571  83 SPALIEQALNAGARGFLSK 101
Cdd:cd00156    80 DEEDAVRALELGADDYLVK 98
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-117 7.09e-17

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 73.47  E-value: 7.09e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMATIM 77
Cdd:COG4565     3 MIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELrarGPDVDVIV 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:COG4565    83 ITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLE 122
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 4-117 8.29e-17

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


Pssm-ID: 381158 [Multi-domain]  Cd Length: 117  Bit Score: 72.77  E-value: 8.29e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL-PKGMAT--IMLSV 80
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALrEEGVSAriVILTV 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:cd19931    81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAAS 117
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-113 3.05e-16

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 74.08  E-value: 3.05e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKG---MATIM 77
Cdd:COG3279     1 MMKILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELdppPPIIF 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1621036571  78 LSVHDSPALieQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:COG3279    81 TTAYDEYAL--EAFEVNAVDYLLKPIDEERLAKALE 114
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 6-117 4.34e-16

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: 70.83  E-value: 4.34e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   6 LIDDHLIVRSGFAQLLGLEA-DFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMATIMLSVH 81
Cdd:cd17536     3 IVDDEPLIREGLKKLIDWEElGFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELiekIRELYPDIKIIILSGY 82

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1621036571  82 DSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:cd17536    83 DDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
134-191 8.12e-14

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 66.70  E-value: 8.12e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1621036571 134 RQDPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELARR 191
Cdd:COG2771   124 RAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVAL 181
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-117 9.89e-14

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: 66.52  E-value: 9.89e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLgLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL--PKGMATIML 78
Cdd:COG3707     3 GLRVLVVDDEPLRRADLREGL-REAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQIseERPAPVILL 81

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:COG3707    82 TAYSDPELIERALEAGVSAYLVKPLDPEDLLPALELALA 120
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 3-115 3.22e-13

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


Pssm-ID: 381110 [Multi-domain]  Cd Length: 118  Bit Score: 63.09  E-value: 3.22e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRsgfaQLLGL---EADFQIVaEFGSGREALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMAT- 75
Cdd:cd17562     2 KILAVDDSASIR----QMVSFtlrGAGYEVV-EAADGRDALSKAQSKKFDLIITDQNMPNMDGIELikeLRKLPAYKFTp 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1621036571  76 -IMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTV 115
Cdd:cd17562    77 iLMLTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 3-113 1.41e-12

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


Pssm-ID: 381113 [Multi-domain]  Cd Length: 118  Bit Score: 61.65  E-value: 1.41e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGLEaDFQIVaEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL----PKgMATIML 78
Cdd:cd17569     2 TILLVDDEPNILKALKRLLRRE-GYEVL-TATSGEEALEILKQEPVDVVISDQRMPGMDGAELLKRVreryPD-TVRILL 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1621036571  79 SVHDSPALIEQALNAGA-RGFLSKRCSPDELIAAVR 113
Cdd:cd17569    79 TGYADLDAAIEAINEGEiYRFLTKPWDDEELKETIR 114
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 2-115 2.49e-12

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: 60.76  E-value: 2.49e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLLgLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIML 78
Cdd:cd17542     1 KKVLIVDDAAFMRMMLKDIL-TKAGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKidpNAKVIMC 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTV 115
Cdd:cd17542    80 SAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 2-113 7.94e-11

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


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 56.83  E-value: 7.94e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLL---GLEadfqiVAEFGSGREALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMAT 75
Cdd:cd17537     1 ATVYVVDDDEAVRDSLAFLLrsvGLA-----VKTFTSASAFLAAAPPDQPGCLVLDVRMPGMSGLELqdeLLARGSNIPI 75

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1621036571  76 IMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:cd17537    76 IFITGHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIE 113
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 4-112 2.03e-10

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: 55.54  E-value: 2.03e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLglEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMAT--IML 78
Cdd:cd17580     1 ILVVDDNEDAAEMLALLL--ELEGAEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELarrLRELPWLANTpaIAL 78

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSKRCSPDELIAAV 112
Cdd:cd17580    79 TGYGQPEDRERALEAGFDAHLVKPVDPDELIELI 112
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 3-113 6.19e-10

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


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 54.37  E-value: 6.19e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGLEADFQIVAeFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL--PKGMAT---IM 77
Cdd:cd17551     2 RILIVDDNPTNLLLLEALLRSAGYLEVVS-FTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLraLPGLEDvpiVM 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:cd17551    81 ITADTDREVRLRALEAGATDFLTKPFDPVELLARVR 116
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 3-113 7.39e-10

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


Pssm-ID: 381127 [Multi-domain]  Cd Length: 133  Bit Score: 54.68  E-value: 7.39e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHliVRSGFAQLLGLEADFQIVAEfGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL----PKGMATIML 78
Cdd:cd17596     2 TILVVDDE--VRSLEALRRTLEEDFDVLTA-ASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVrerwPEVVRIIIS 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:cd17596    79 GYTDSEDIIAGINEAGIYQYLTKPWHPDQLLLTVR 113
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 4-112 8.50e-10

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: 54.01  E-value: 8.50e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLglEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMAT---IM 77
Cdd:cd17546     1 VLVVDDNPVNRKVLKKLL--EKLGYEVDVAENGQEALELLKEEPFDLVLMDLQMPVMDGLEAtrrIRELEGGGRRtpiIA 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAV 112
Cdd:cd17546    79 LTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
107-191 1.92e-09

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 54.71  E-value: 1.92e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571 107 ELIAAVRTVAAGGCYLTPDIAMKLAAGRQDPltKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDV 186
Cdd:COG2909    94 ALLERLLALAEAAGRLLLRALALRALGDREE--ALAALRRRLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRT 171


                  ....*
gi 1621036571 187 ELARR 191
Cdd:COG2909   172 EAVAR 176
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 3-115 6.43e-09

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


Pssm-ID: 381108 [Multi-domain]  Cd Length: 129  Bit Score: 52.03  E-value: 6.43e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDH----LIVRSGFAQLlGLEADFQIVaefGSGREALTGLPGRGVQVC-------ICDISMPDISGLELLSQL-- 69
Cdd:cd17557     1 TILLVEDNpgdaELIQEAFKEA-GVPNELHVV---RDGEEALDFLRGEGEYADaprpdliLLDLNMPRMDGFEVLREIka 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1621036571  70 -P--KGMATIMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTV 115
Cdd:cd17557    77 dPdlRRIPVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSL 125
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 6-117 7.44e-09

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: 51.77  E-value: 7.44e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   6 LIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMATIMLSVHD 82
Cdd:cd17532     3 IVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELakkLSKLAKPPLIVFVTAYD 82

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1621036571  83 SPALieQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:cd17532    83 EYAV--EAFELNAVDYLLKPFSEERLAEALAKLRK 115
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 4-116 1.55e-08

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: 50.56  E-value: 1.55e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQllGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK-GMAT--IMLSV 80
Cdd:cd17624     1 ILLVEDDALLGDGLKT--GLRKAGYAVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRqGQSLpvLILTA 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVA 116
Cdd:cd17624    79 RDGVDDRVAGLDAGADDYLVKPFALEELLARLRALL 114
PRK11697 PRK11697
two-component system response regulator BtsR;
1-69 1.78e-07

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 49.84  E-value: 1.78e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1621036571   1 MTTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL 69
Cdd:PRK11697    1 MIKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLELVGML 69
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 2-108 3.54e-07

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


Pssm-ID: 381098 [Multi-domain]  Cd Length: 122  Bit Score: 47.13  E-value: 3.54e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLLGLEaDFQIVaEFGSGREALTGL---PGrgVQVCICDISMPDISGLELLSQLPKG-----M 73
Cdd:cd17544     1 IKVLVVDDSATSRNHLRALLRRH-NFQVL-EAANGQEALEVLeqhPD--IKLVITDYNMPEMDGFELVREIRKKysrdqL 76

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1621036571  74 ATIMLSVHDSPALIEQALNAGARGFLSKRCSPDEL 108
Cdd:cd17544    77 AIIGISASGDNALSARFIKAGANDFLTKPFLPEEF 111
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 4-117 4.87e-07

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


Pssm-ID: 381159 [Multi-domain]  Cd Length: 118  Bit Score: 46.64  E-value: 4.87e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGlEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMA--TIMLSVH 81
Cdd:cd19932     3 VLIAEDEALIRMDLREMLE-EAGYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIapIVLLTAY 81

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1621036571  82 DSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:cd19932    82 SQQDLVERAKEAGAMAYLVKPFSESDLIPAIEMAIA 117
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 4-108 7.99e-07

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


Pssm-ID: 381150 [Multi-domain]  Cd Length: 119  Bit Score: 46.18  E-value: 7.99e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGlEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELL------SQLpKGMATIM 77
Cdd:cd19923     3 VLVVDDFSTMRRIIKNLLK-ELGFNNVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLktiradGAL-SHLPVLM 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDEL 108
Cdd:cd19923    81 VTAEAKKENVIAAAQAGVNNYIVKPFTAATL 111
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 30-113 2.22e-06

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: 44.80  E-value: 2.22e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  30 VAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIMLSVHdspALIEQALNA---GARGFLSKRC 103
Cdd:cd17550    25 VDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEkypDLPVIMISGH---GTIETAVKAtklGAYDFIEKPL 101

                          90
                  ....*....|
gi 1621036571 104 SPDELIAAVR 113
Cdd:cd17550   102 SLDRLLLTIE 111
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 35-113 2.53e-06

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: 44.88  E-value: 2.53e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  35 SGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKG---MATIMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAA 111
Cdd:cd17572    30 TGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERslpTSVIVITAHGSVDIAVEAMRLGAYDFLEKPFDADRLRVT 109


                  ..
gi 1621036571 112 VR 113
Cdd:cd17572   110 VR 111
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 4-101 3.00e-06

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


Pssm-ID: 381163 [Multi-domain]  Cd Length: 99  Bit Score: 43.97  E-value: 3.00e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAqlLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK--GMATIMLSVH 81
Cdd:cd19936     1 IALVDDDRNILTSVS--MALEAEGFSVETYTDGASALDGLNARPPDLAILDIKMPRMDGMELLQRLRQksTLPVIFLTSK 78

                          90       100
                  ....*....|....*....|
gi 1621036571  82 DSPALIEQALNAGARGFLSK 101
Cdd:cd19936    79 DDEIDEVFGLRMGADDYITK 98
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 2-71 3.48e-06

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


Pssm-ID: 381107 [Multi-domain]  Cd Length: 116  Bit Score: 44.11  E-value: 3.48e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLLgLEADFQiVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK 71
Cdd:cd17555     1 ATILVIDDDEVVRESIAAYL-EDSGFQ-VLQAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITK 68
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 62-188 5.98e-06

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 45.12  E-value: 5.98e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  62 GLELLSQLPKG---MATIMLSVHDSPA-LIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDIAMKLAAGRQDP 137
Cdd:PRK11475   55 GLSCLTELAIKfprMRRLVIADDDIEArLIGSLSPSPLDGVLSKASTLEILQQELFLSLNGVRQATDRLNNQWYINQSRM 134

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1621036571 138 LTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVEL 188
Cdd:PRK11475  135 LSPTEREILRFMSRGYSMPQIAEQLERNIKTIRAHKFNVMSKLGVSSDAGL 185
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 23-101 6.67e-06

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: 43.17  E-value: 6.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  23 LEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT---IMLSVHDSPALIEQALNAGARGFL 99
Cdd:cd17574    17 LEKEGYEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDipiIMLTAKDEEEDKVLGLELGADDYI 96


                  ..
gi 1621036571 100 SK 101
Cdd:cd17574    97 TK 98
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 11-108 8.79e-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: 43.00  E-value: 8.79e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  11 LIVRSGFAQLLGLEADFQ----IVAEFGSGREALTGL--PGRGVQVCICDISMPDISGLELLSQLPKGM--ATIMLSVHD 82
Cdd:cd17584     2 LVVDDDPTCLAILKRMLLrcgyQVTTCTDAEEALSMLreNKDEFDLVITDVHMPDMDGFEFLELIRLEMdlPVIMMSADG 81

                          90       100
                  ....*....|....*....|....*.
gi 1621036571  83 SPALIEQALNAGARGFLSKRCSPDEL 108
Cdd:cd17584    82 STSTVMKGLAHGACDYLLKPVSIEDL 107
PRK10693 PRK10693
two-component system response regulator RssB;
31-101 8.82e-06

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 44.98  E-value: 8.82e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1621036571  31 AEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLP-KGMAT--IMLSVHDSPALIEQALNAGARGFLSK 101
Cdd:PRK10693    1 VLAANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRnRGDQTpvLVISATENMADIAKALRLGVQDVLLK 74
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 4-115 1.01e-05

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


Pssm-ID: 381138 [Multi-domain]  Cd Length: 115  Bit Score: 43.06  E-value: 1.01e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEA-DFQIVAEFGSGREALTGLPGRGVqvcICDISMPDISGLELLSQLPKG--MATIMLSV 80
Cdd:cd17623     1 ILLIDDDRELTELLTEYLEMEGfNVRAAHDGEQGLAALLEGSPDLV---VLDVMLPKMNGLDVLKELRKTsqVPVLMLTA 77

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVRTV 115
Cdd:cd17623    78 RGDDIDRILGLELGADDYLPKPFNPRELVARIRAI 112
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 2-113 1.21e-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: 42.65  E-value: 1.21e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLLGlEADFQiVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIML 78
Cdd:cd19919     1 KTVWIVDDDSSIRWVLERALA-GAGLT-VTSFENAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQrhpDLPVIIM 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:cd19919    79 TAHSDLDSAVSAYQGGAFEYLPKPFDIDEAVALVE 113
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 3-58 1.49e-05

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


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 41.01  E-value: 1.49e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1621036571    3 TIALIDDHLIVRSGFAQLLGlEADFQiVAEFGSGREALTGLPGRGVQVCICDISMP 58
Cdd:smart00448   2 RILVVDDDPLLRELLKALLE-KEGYE-VDEATDGEEALELLKEEKPDLILLDIMMP 55
PRK15115 PRK15115
response regulator GlrR; Provisional
 4-112 1.81e-05

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 44.44  E-value: 1.81e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHlivrSGFAQLLG--LEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIML 78
Cdd:PRK15115    8 LLLVDDD----PGLLKLLGmrLTSEGYSVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIQKvqpGMPVIIL 83

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1621036571  79 SVHDSpalIEQALNAGARG---FLSKRCSPDELIAAV 112
Cdd:PRK15115   84 TAHGS---IPDAVAATQQGvfsFLTKPVDRDALYKAI 117
PRK10100 PRK10100
transcriptional regulator CsgD;
108-184 2.93e-05

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 43.32  E-value: 2.93e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571 108 LIAAVRTVAAGGCYLTPDIA----MKLAAGRQD-----PLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLE 178
Cdd:PRK10100  117 VVNGLQGVLRGECYFTQKLAsyliTHSGNYRYNstesaLLTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFK 196


                  ....*.
gi 1621036571 179 KLGVSN 184
Cdd:PRK10100  197 KIAVKN 202
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
134-192 3.17e-05

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 43.78  E-value: 3.17e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1621036571 134 RQDPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVElARRM 192
Cdd:PRK04841  835 RTSPLTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQE-AVQH 892
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 6-108 3.32e-05

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


Pssm-ID: 381124 [Multi-domain]  Cd Length: 117  Bit Score: 41.75  E-value: 3.32e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   6 LI-DDHLIVRSGFAQLLGLEADFQIV-AEfgSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK-GMAT--IMLSV 80
Cdd:cd17593     4 LIcDDSSMARKQLARALPADWDVEITfAE--NGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVeQLETkvIVVSG 81

                          90       100
                  ....*....|....*....|....*...
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDEL 108
Cdd:cd17593    82 DVQPEAKERVLELGALAFLKKPFDPEKL 109
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 3-117 3.83e-05

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


Pssm-ID: 443624 [Multi-domain]  Cd Length: 177  Bit Score: 42.21  E-value: 3.83e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDhlivRSGFAQLLG--LEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMATIM 77
Cdd:COG4567     6 SLLLVDD----DEAFARVLAraLERRGFEVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLieaLRERDPDARIVV 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAA 117
Cdd:COG4567    82 LTGYASIATAVEAIKLGADDYLAKPADADDLLAALERAEG 121
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 30-110 3.86e-05

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


Pssm-ID: 381086 [Multi-domain]  Cd Length: 123  Bit Score: 41.66  E-value: 3.86e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  30 VAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLP---KGMATIMLSVHDSPALIEQALNAGARGF-----LSK 101
Cdd:cd17530    28 VDEADDGREALVILLCNAPDIIICDLKMPDMDGIEFLRHLAeshSNAAVILMSGLDGGILESAETLAGANGLnllgtLSK 107


                  ....*....
gi 1621036571 102 RCSPDELIA 110
Cdd:cd17530   108 PFSPEELTE 116
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 3-101 3.86e-05

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


Pssm-ID: 381093 [Multi-domain]  Cd Length: 104  Bit Score: 40.94  E-value: 3.86e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGLEaDFQIVaEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT-----IM 77
Cdd:cd17538     1 KILVVDDEPANRELLEALLSAE-GYEVL-TADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKEDPETrhipvIM 78

                          90       100
                  ....*....|....*....|....
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSK 101
Cdd:cd17538    79 ITALDDREDRIRGLEAGADDFLSK 102
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 4-113 4.19e-05

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


Pssm-ID: 381142 [Multi-domain]  Cd Length: 116  Bit Score: 41.21  E-value: 4.19e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEAdfQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMATI---MLSV 80
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLRFEG--YEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLpilVLTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1621036571  81 HDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:cd17627    79 RDSVSDRVAGLDAGADDYLVKPFALEELLARVR 111
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 4-101 5.23e-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: 41.22  E-value: 5.23e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLpkgMAT-----IML 78
Cdd:cd17541     3 VLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRI---MAErptpvVMV 79

                          90       100
                  ....*....|....*....|....*
gi 1621036571  79 SVHDSP--ALIEQALNAGARGFLSK 101
Cdd:cd17541    80 SSLTEEgaEITLEALELGAVDFIAK 104
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 36-113 5.29e-05

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


Pssm-ID: 381128 [Multi-domain]  Cd Length: 118  Bit Score: 41.16  E-value: 5.29e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  36 GREALTGLPGRGVQVCICDISMPDISGLELLSQLP-----KGMATIMLSVHDSPALIEQALNAGARGFLSKRCSPDELIA 110
Cdd:cd17598    31 GREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKsdpdlKDIPVILLTTLSDPRDVIRGLECGADNFITKPYDEKYLLS 110


                  ...
gi 1621036571 111 AVR 113
Cdd:cd17598   111 RIK 113
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 39-101 5.51e-05

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


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 40.81  E-value: 5.51e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  39 ALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMA-----TIMLSVHDspALIEQALN--AGARGFLSK 101
Cdd:cd17602    34 ALTTLLNSKPDLILIDIDMPDLDGYELCSLLRKSSAlkdtpIIMLTGKD--GLVDRIRAkmAGASGYLTK 101
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 4-115 7.57e-05

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


Pssm-ID: 381104 [Multi-domain]  Cd Length: 121  Bit Score: 40.61  E-value: 7.57e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSgFAQL-LGLEADFQiVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT-----IM 77
Cdd:cd17552     4 ILVIDDEEDIRE-VVQAcLEKLAGWE-VLTASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQANPETqsipvIL 81

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1621036571  78 LSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTV 115
Cdd:cd17552    82 LTAKAQPSDRQRFASLGVAGVIAKPFDPLTLAEQIAKL 119
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 23-115 1.22e-04

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 41.49  E-value: 1.22e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  23 LEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL---PKGMATIMLSVHDSPALIEQALNAGARGFL 99
Cdd:PRK11083   23 LQSEGFTVEWFERGLPALDKLRQQPPDLVILDVGLPDISGFELCRQLlafHPALPVIFLTARSDEVDRLVGLEIGADDYV 102

                          90
                  ....*....|....*.
gi 1621036571 100 SKRCSPDELIAAVRTV 115
Cdd:PRK11083  103 AKPFSPREVAARVRTI 118
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 30-101 1.38e-04

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


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 39.46  E-value: 1.38e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1621036571  30 VAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT--IMLSVHDSPALIEQALNAGARGFLSK 101
Cdd:cd17620    25 VFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLREWSAVpvIVLSARDEESDKIAALDAGADDYLTK 98
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 2-115 1.46e-04

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


Pssm-ID: 381133 [Multi-domain]  Cd Length: 118  Bit Score: 39.93  E-value: 1.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLLGLeADFQIVaEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT-----I 76
Cdd:cd17618     1 RTILIVEDEPAIREMIAFNLER-AGFDVV-EAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRDEMTrdipiI 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1621036571  77 MLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTV 115
Cdd:cd17618    79 MLTARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAV 117
PRK10610 PRK10610
chemotaxis protein CheY;
6-101 1.48e-04

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 39.96  E-value: 1.48e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   6 LIDDHLIVRSGFAQLLGlEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK--GMATI---MLSV 80
Cdd:PRK10610   10 VVDDFSTMRRIVRNLLK-ELGFNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRAdgAMSALpvlMVTA 88

                          90       100
                  ....*....|....*....|.
gi 1621036571  81 HDSPALIEQALNAGARGFLSK 101
Cdd:PRK10610   89 EAKKENIIAAAQAGASGYVVK 109
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 138-180 1.61e-04

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 40.41  E-value: 1.61e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1621036571 138 LTKRERQVAE-KLAQGMAVKEIAAELGLSPKTVHVHRANLLEKL 180
Cdd:TIGR02937 111 LPEREREVLVlRYLEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 4-101 1.61e-04

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


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 39.67  E-value: 1.61e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLGlEADFQIvAEFGSGREALTGLPGRGVQ---------VCICDISMPDISGLELLSQL---PK 71
Cdd:cd19924     1 ILVVDDSPTARKQLRDLLK-NLGFEI-AEAVDGEEALNKLENLAKEgndlskeldLIITDIEMPKMDGYELTFELrddPR 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1621036571  72 gMATIMLSVH---DSPALIEQALNAGARGFLSK 101
Cdd:cd19924    79 -LANIPVILNsslSGEFSRARGKKVGADAYLAK 110
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 30-115 1.92e-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: 39.64  E-value: 1.92e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  30 VAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIMLSVHDSPALIEQALNAGARGFLSKRCSPD 106
Cdd:cd17615    26 VETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRAdgpDVPVLFLTAKDSVEDRIAGLTAGGDDYVTKPFSLE 105


                  ....*....
gi 1621036571 107 ELIAAVRTV 115
Cdd:cd17615   106 EVVARLRAL 114
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 2-113 3.14e-04

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


Pssm-ID: 381117 [Multi-domain]  Cd Length: 128  Bit Score: 38.93  E-value: 3.14e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLLGLEADfqIVAEFGSG-REALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT----- 75
Cdd:cd17575     1 IMVLLVDDQAIIGEAVRRALADEED--IDFHYCSDpTEAIEVASQIKPTVILQDLVMPGVDGLTLVRFFRANPATrdipi 78

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1621036571  76 IMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:cd17575    79 IVLSTKEEPEVKSEAFALGANDYLVKLPDKIELVARIR 116
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 151-180 6.46e-04

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


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 38.70  E-value: 6.46e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 1621036571 151 QGMAVKEIAAELGLSPKTVHVHRANLLEKL 180
Cdd:TIGR02985 128 EGLSNKEIAEELGISVKTVEYHITKALKFL 157
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 138-180 6.98e-04

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


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 38.82  E-value: 6.98e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1621036571 138 LTKRERQVAE-KLAQGMAVKEIAAELGLSPKTV--HVHRAnlLEKL 180
Cdd:COG1595   128 LPPRQREVLVlRYLEGLSYAEIAEILGISEGTVksRLSRA--RKKL 171
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 30-115 7.54e-04

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: 37.64  E-value: 7.54e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  30 VAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL-----PKGMATIMLSVHDSPALIEQALNAGARGFLSKRCS 104
Cdd:cd19937    24 VVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILrsdpkTSSIPIIMLTAKGEEFDKVLGLELGADDYITKPFS 103

                          90
                  ....*....|.
gi 1621036571 105 PDELIAAVRTV 115
Cdd:cd19937   104 PRELLARVKAV 114
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 1-113 8.28e-04

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 39.02  E-value: 8.28e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   1 MTTIALIDDHLIVRSgFAQLlGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMA--TIML 78
Cdd:PRK10529    1 MTNVLIVEDEQAIRR-FLRT-ALEGDGMRVFEAETLQRGLLEAATRKPDLIILDLGLPDGDGIEFIRDLRQWSAipVIVL 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:PRK10529   79 SARSEESDKIAALDAGADDYLSKPFGIGELQARLR 113
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 128-175 9.44e-04

CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein Csa3, CARF domain is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 442641 [Multi-domain]  Cd Length: 325  Bit Score: 39.06  E-value: 9.44e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1621036571 128 MKLAAGRQDPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVH--VHRAN 175
Cdd:COG3415    14 EKLLRKTKDAREARRLRAVLLLAEGLSVREIAERLGVSRSTVYrwLKRYR 63
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 3-112 9.87e-04

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: 37.39  E-value: 9.87e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLgLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMP-DISGLELLSQLPKGMAT--IMLS 79
Cdd:cd17534     2 KILIVEDEAIIALDLKEIL-ESLGYEVVGIADSGEEAIELAEENKPDLILMDINLKgDMDGIEAAREIREKFDIpvIFLT 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1621036571  80 VHDSPALIEQALNAGARGFLSKRCSPDELIAAV 112
Cdd:cd17534    81 AYSDEETLERAKETNPYGYLVKPFNERELKAAI 113
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 31-112 1.02e-03

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 39.08  E-value: 1.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  31 AEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKG---MATIMLSVHDSPALIEQALNAGARGFLSKRCSPDE 107
Cdd:PRK10923   31 TTFENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRhpmLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110


                  ....*
gi 1621036571 108 LIAAV 112
Cdd:PRK10923  111 AVALV 115
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 49-115 1.12e-03

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


Pssm-ID: 381140 [Multi-domain]  Cd Length: 115  Bit Score: 37.20  E-value: 1.12e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  49 QVCICDISMPDISGLELLSQLPK-GMAT--IMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTV 115
Cdd:cd17625    43 DLIILDIMLPGMDGLEVLKSLREeGIETpvLLLTALDAVEDRVKGLDLGADDYLPKPFSLAELLARIRAL 112
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 3-101 1.14e-03

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


Pssm-ID: 381144 [Multi-domain]  Cd Length: 103  Bit Score: 37.10  E-value: 1.14e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQllGLEADFQIVAEFGSGREALTGLP-GRGVQVCICDISMPDISGLELLSQLPK---GMATIML 78
Cdd:cd18160     1 TILLADDEPSVRKFIVT--TLKKAGYAVTEAESGAEALEKLQqGKDIDIVVTDIVMPEMDGIELAREARKidpDVKILFI 78

                          90       100
                  ....*....|....*....|...
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSK 101
Cdd:cd18160    79 SGGAAAAPELLSDAVGDNATLKK 101
COG1777 COG1777
Predicted transcriptional regulator, ArsR family [Transcription];
143-191 1.39e-03

Predicted transcriptional regulator, ArsR family [Transcription];


Pssm-ID: 441383  Cd Length: 113  Bit Score: 36.94  E-value: 1.39e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1621036571 143 RQVAEKLAQG-MAVKEIAAELGLSPKTVHVH-----RANLLEKLGVSNDVELARR 191
Cdd:COG1777    20 RRILALLSEEpAYVSELARELGVSRQAVYKHlrkleEAGLVESYREGREDGRARK 74
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
3-113 1.48e-03

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 38.68  E-value: 1.48e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   3 TIALIDDHLIVRSGFAQLLGLEADFQIVAEfgSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIMLS 79
Cdd:PRK11361    6 RILIVDDEDNVRRMLSTAFALQGFETHCAN--NGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRShetRTPVILMT 83

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1621036571  80 VHDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:PRK11361   84 AYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQ 117
PRK15479 PRK15479
transcriptional regulator TctD;
50-113 1.86e-03

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 37.78  E-value: 1.86e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1621036571  50 VCICDISMPDISGLELLSQLPK---GMATIMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:PRK15479   47 LAVLDINMPGMDGLEVLQRLRKrgqTLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEELDARLR 113
HTH_Tnp_ISL3 pfam13542
Helix-turn-helix domain of transposase family ISL3;
139-170 1.93e-03

Helix-turn-helix domain of transposase family ISL3;


Pssm-ID: 463915 [Multi-domain]  Cd Length: 51  Bit Score: 35.14  E-value: 1.93e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1621036571 139 TKRERQVAEKLAQGMAVKEIAAELGLSPKTVH 170
Cdd:pfam13542  13 TLRFEAYILELLLEMSVKAVARLLGVSWTTVW 44
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 37-101 2.57e-03

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


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 35.98  E-value: 2.57e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1621036571  37 REALTGLPGRGVQVCICDISMPDISGLEL---LSQLPKGMATIMLSVHDSPALIEQALNAGARGFLSK 101
Cdd:cd19926    32 KEARELLASEPYDLCLTDMRLPDGSGLELvqhIQQRLPQTPVAVITAYGSLDTAIEALKAGAFDFLTK 99
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 4-101 2.89e-03

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


Pssm-ID: 381154 [Multi-domain]  Cd Length: 102  Bit Score: 35.82  E-value: 2.89e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRSGFAQLLgLEADFQIVAEfGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKG-----MATIML 78
Cdd:cd19927     1 ILLVDDDPGIRLAVKDYL-EDQGFTVIAA-SNGLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRKNadfdtIPVIFL 78

                          90       100
                  ....*....|....*....|...
gi 1621036571  79 SVHDSPALIEQALNAGARGFLSK 101
Cdd:cd19927    79 TAKGMTSDRIKGYNAGCDGYLSK 101
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 4-113 3.10e-03

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


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 36.11  E-value: 3.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHLIVRsgfAQLLGLEADFQIVAEFGS-GREALTGLPGRGVQVCICDISMPDISGLELLSQL-PKGMAT--IMLS 79
Cdd:cd19934     1 LLLVEDDALLA---AQLKEQLSDAGYVVDVAEdGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWrSEGRATpvLILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1621036571  80 VHDSPALIEQALNAGARGFLSKRCSPDELIAAVR 113
Cdd:cd19934    78 ARDSWQDKVEGLDAGADDYLTKPFHIEELLARLR 111
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 2-71 3.46e-03

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: 36.07  E-value: 3.46e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   2 TTIALIDDHLIVRSGFAQLLGLEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPK 71
Cdd:cd19925     1 INVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRA 70
psREC_PRR cd17582
pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...
 30-101 3.52e-03

pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response regulators (PRRs), also called APRRs, comprise a core group of clock components that controls the pace of the central oscillator of the circadian clock, an endogenous time-keeping mechanism that enables organisms to adapt to external daily cycles. The coordinated sequential expression of PRR9 (APRR9), PRR7 (APRR7), PRR5 (APRR5), PRR3 (APRR3), and PRR1 (APRR1) results in circadian waves that may be at the basis of the endogenous circadian clock. PRRs contain an N-terminal pseudo receiver (psREC) domain that resembles the receiver domain of a two-component response regulator, but lacks an aspartate residue that accepts a phosphoryl group from the sensor kinase, and a CCT motif at the C-terminus that contains a putative nuclear localization signal. The psREC domain is involved in protein-protein interactions.


Pssm-ID: 381120 [Multi-domain]  Cd Length: 104  Bit Score: 35.84  E-value: 3.52e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1621036571  30 VAEFGSGREALTGLPGRG--VQVCICDISMPDISGLELLSQLP-----KGMATIMLSVHDSPALIEQALNAGARGFLSK 101
Cdd:cd17582    25 VTAASDGLQAWDVLEDEQneIDLILTEVDLPVSSGFKLLSYIMrhkicKNIPVIMMSSQDSVGVVFKCLSKGAADYLVK 103
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 30-113 3.74e-03

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: 35.59  E-value: 3.74e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  30 VAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMATimlsvHDSP--ALI--------EQALNAGARGFL 99
Cdd:cd17548    26 VLEAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKEDPAT-----RDIPviALTayamkgdrEKILEAGCDGYI 100

                          90
                  ....*....|....
gi 1621036571 100 SKRCSPDELIAAVR 113
Cdd:cd17548   101 SKPIDTREFLETVA 114
Terminase_5 pfam06056
Putative ATPase subunit of terminase (gpP-like); This family of proteins are annotated as ...
 142-170 3.74e-03

Putative ATPase subunit of terminase (gpP-like); This family of proteins are annotated as ATPase subunits of phage terminase after. Terminases are viral proteins that are involved in packaging viral DNA into the capsid.


Pssm-ID: 428745 [Multi-domain]  Cd Length: 58  Bit Score: 34.67  E-value: 3.74e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1621036571 142 ERQVAEKLA-QGMAVKEIAAELGLSPKTVH 170
Cdd:pfam06056   2 VRRQARFLYwQGYRPAEIAEMLGLKEATVY 31
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 4-114 4.19e-03

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


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 35.52  E-value: 4.19e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571   4 IALIDDHlivrSGFAQLLG--LEADFQIVAEFGSGREALTGLPGRGVQVCICDISMPDISGLELLSQL--PKGMATIMLS 79
Cdd:cd17626     3 ILVVDDD----AALAEMIGivLRGEGFDPAFCGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVCRQIraESGVPIVMLT 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1621036571  80 VHDSPALIEQALNAGARGFLSKRCSPDELIAAVRT 114
Cdd:cd17626    79 AKSDTVDVVLGLESGADDYVAKPFKPKELVARIRA 113
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 52-141 5.17e-03

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 36.44  E-value: 5.17e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  52 ICDISMPDISGLELLSQL---PKGMATIMLSVHDSPALIEQALNAGARGFLSKRCSPDELIAAVRTVAAGGCYLTPDIAM 128
Cdd:PRK09836   49 ILDIMLPDVNGWDIVRMLrsaNKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRRGAAVIIESQF 128

                          90
                  ....*....|...
gi 1621036571 129 KLAAGRQDPLTKR 141
Cdd:PRK09836  129 QVADLMVDLVSRK 141
HTH_23 pfam13384
Homeodomain-like domain;
137-175 5.50e-03

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 33.78  E-value: 5.50e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1621036571 137 PLTKRER-QVAEKLAQGMAVKEIAAELGLSPKTVH--VHRAN 175
Cdd:pfam13384   1 SARERRRaRALLLLAEGLSVKEIAELLGVSRRTVYrwLKRYN 42
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 138-174 5.87e-03

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


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 33.97  E-value: 5.87e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1621036571 138 LTKRERQV-AEKLAQGMAVKEIAAELGLSPKTV--HVHRA 174
Cdd:pfam08281  11 LPPRQREVfLLRYLEGLSYAEIAELLGISEGTVksRLSRA 50
REC_typeA_ARR cd17581
phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and ...
 19-101 6.06e-03

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


Pssm-ID: 381119 [Multi-domain]  Cd Length: 122  Bit Score: 35.42  E-value: 6.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  19 QLLGLEADfqivaefgsgrEALTGLPGRGVQVCICDISMPDISGLELL-----SQLPKGMATIMLSVHDSPALIEQALNA 93
Cdd:cd17581    36 EFLGLEDE-----------EDSSNFNEPKVNMIITDYCMPGMTGYDLLkkvkeSSALKEIPVVIMSSENIPTRISRCLEE 104


                  ....*...
gi 1621036571  94 GARGFLSK 101
Cdd:cd17581   105 GAEDFLLK 112
pleD PRK09581
response regulator PleD; Reviewed
 23-113 7.52e-03

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 36.42  E-value: 7.52e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1621036571  23 LEAdfQIVAEF------GSGREALTGLPGRGVQVCICDISMPDISGLELLSQLPKGMAT-----IMLSVHDSPALIEQAL 91
Cdd:PRK09581   18 LEA--KLLAEYytvltaSSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKSDPATthipvVMVTALDDPEDRVRGL 95

                          90       100
                  ....*....|....*....|..
gi 1621036571  92 NAGARGFLSKRCSPDELIAAVR 113
Cdd:PRK09581   96 EAGADDFLTKPINDVALFARVK 117
PRK10188 PRK10188
transcriptional regulator SdiA;
138-189 7.83e-03

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 35.92  E-value: 7.83e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1621036571 138 LTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLLEKLGVSNDVELA 189
Cdd:PRK10188  180 FSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQIA 231
cas_HTH TIGR01884
CRISPR locus-related DNA-binding protein; Most but not all examples of this family are ...
 137-179 9.84e-03

CRISPR locus-related DNA-binding protein; Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity. [Regulatory functions, DNA interactions, , ]


Pssm-ID: 273852 [Multi-domain]  Cd Length: 203  Bit Score: 35.79  E-value: 9.84e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1621036571 137 PLTKRERQVAEKLAQ--GMAVKEIAAELGLSPKTVHVHRANLLEK 179
Cdd:TIGR01884 140 GLSREELKILEVLKAtgEKSVKNIAKKLGKSLSTISRHLAELEKK 184
 
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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