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Conserved domains on  [gi|1184845659|gb|ARK04133|]
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DNA-binding response regulator [Cellulosimicrobium sp. TH-20]

Protein Classification

transcriptional regulator( domain architecture ID 1003377)

transcriptional regulator may belong to the NarL family and contain a C-terminal helix-turn-helix DNA-binding domain and an N-terminal REC domain, thereby functioning as a response regulator

Gene Ontology:  GO:0003677|GO:0006355|GO:0000160
PubMed:  16740923

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10651 super family cl32550
transcriptional regulator NarL; Provisional
 15-214 9.51e-47

transcriptional regulator NarL; Provisional


The actual alignment was detected with superfamily member PRK10651:

Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 153.65  E-value: 9.51e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:PRK10651    7 ATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVF 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLLFPDAVRRLATA--HPPTGDALRGARLTEREGEVLRL 172
Cdd:PRK10651   87 SVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASlrANRATTERDVNQLTPRERDILKL 166

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1184845659 173 VAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVV 214
Cdd:PRK10651  167 IAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAV 208
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 15-214 9.51e-47

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 153.65  E-value: 9.51e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:PRK10651    7 ATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVF 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLLFPDAVRRLATA--HPPTGDALRGARLTEREGEVLRL 172
Cdd:PRK10651   87 SVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASlrANRATTERDVNQLTPRERDILKL 166

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1184845659 173 VAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVV 214
Cdd:PRK10651  167 IAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAV 208
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 17-133 1.44e-45

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: 147.27  E-value: 1.44e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 14-223 4.52e-44

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: 144.26  E-value: 4.52e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  14 TVRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLardgaprvlv 93
Cdd:COG2197     1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRLL---------- 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  94 lttfenddhvldalragahgfllkrarpeevaqavrvvargesllfpdavrrlatahpptgdalrgarlTEREGEVLRLV 173
Cdd:COG2197    71 ---------------------------------------------------------------------TPREREVLRLL 81

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1184845659 174 AQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRAYESGFVR 223
Cdd:COG2197    82 AEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLLD 131
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 17-129 6.55e-28

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: 101.84  E-value: 6.55e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDaEPDLeVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE-KEGY-VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 160-216 6.49e-23

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 87.58  E-value: 6.49e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1184845659  160 ARLTEREGEVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRA 216
Cdd:smart00421   2 ASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 15-134 1.17e-15

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


Pssm-ID: 131922 [Multi-domain]  Cd Length: 262  Bit Score: 73.67  E-value: 1.17e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRAL--LARDGAPRVL 92
Cdd:TIGR02875   3 IRIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLneIELSARPRVI 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1184845659  93 VLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARG 134
Cdd:TIGR02875  83 MLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWG 124
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 15-214 9.51e-47

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 153.65  E-value: 9.51e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:PRK10651    7 ATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVF 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLLFPDAVRRLATA--HPPTGDALRGARLTEREGEVLRL 172
Cdd:PRK10651   87 SVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASlrANRATTERDVNQLTPRERDILKL 166

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1184845659 173 VAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVV 214
Cdd:PRK10651  167 IAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAV 208
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 17-133 1.44e-45

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: 147.27  E-value: 1.44e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 14-223 4.52e-44

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: 144.26  E-value: 4.52e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  14 TVRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLardgaprvlv 93
Cdd:COG2197     1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRLL---------- 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  94 lttfenddhvldalragahgfllkrarpeevaqavrvvargesllfpdavrrlatahpptgdalrgarlTEREGEVLRLV 173
Cdd:COG2197    71 ---------------------------------------------------------------------TPREREVLRLL 81

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1184845659 174 AQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRAYESGFVR 223
Cdd:COG2197    82 AEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLLD 131
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
16-214 6.56e-37

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 128.43  E-value: 6.56e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRAlLARDG-APRVLVL 94
Cdd:PRK10403    8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNA-LRRDGvTAQIIIL 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGeSLLFPDAVRRLATAHPPTGDALRG-ARLTEREGEVLRLV 173
Cdd:PRK10403   87 TVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKG-SKVFSERVNQYLREREMFGAEEDPfSVLTERELDVLHEL 165

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 1184845659 174 AQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVV 214
Cdd:PRK10403  166 AQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATI 206
PRK15369 PRK15369
two component system response regulator;
15-211 1.75e-34

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 122.11  E-value: 1.75e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:PRK15369    4 YKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILVL 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLLFP----DAVRRL--ATAHPPTgdalrgaRLTEREGE 168
Cdd:PRK15369   84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPalnrEAILALlnADDTNPP-------LLTPRERQ 156

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1184845659 169 VLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQ 211
Cdd:PRK15369  157 ILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAE 199
PRK09483 PRK09483
response regulator; Provisional
 15-206 5.00e-34

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 120.98  E-value: 5.00e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:PRK09483    2 INVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIML 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLLFPDAVRRLATAH--PPTGDALrgARLTEREGEVLRL 172
Cdd:PRK09483   82 TVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQiePATENPF--ASLSERELQIMLM 159

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1184845659 173 VAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGV 206
Cdd:PRK09483  160 ITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNI 193
PRK10360 PRK10360
transcriptional regulator UhpA;
15-219 2.02e-31

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 113.92  E-value: 2.02e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALlardgaPR---V 91
Cdd:PRK10360    2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQL------PKgmaT 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  92 LVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLLFPDAVRRLATAhpptgdalRGARLTEREGEVLR 171
Cdd:PRK10360   76 IMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASG--------RQDPLTKRERQVAE 147

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1184845659 172 LVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRAYES 219
Cdd:PRK10360  148 KLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELARRMFDG 195
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 16-117 1.46e-30

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: 108.71  E-value: 1.46e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:COG4753     1 KVLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILS 80

                          90       100
                  ....*....|....*....|..
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLK 117
Cdd:COG4753    81 GYSDFEYAQEAIKLGADDYLLK 102
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 17-207 5.06e-30

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: 110.19  E-value: 5.06e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEpDLEVVGeAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:COG4566     2 VYIVDDDEAVRDSLAFLLESA-GLRVET-FASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAV-RVVARGESLLFPDAVRRLATAhpptgdalRGARLTEREGEVLRLVAQ 175
Cdd:COG4566    80 HGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVrRALARDRARRAERARRAELRA--------RLASLTPREREVLDLVVA 151

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1184845659 176 GLSNAEIAAELYLGVETVRTHVGNVLAKLGVR 207
Cdd:COG4566   152 GLSNKQIARELGISPRTVEVHRANVMEKLGAR 183
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 17-129 6.55e-28

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: 101.84  E-value: 6.55e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDaEPDLeVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE-KEGY-VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 17-129 9.47e-28

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: 102.04  E-value: 9.47e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:cd19931    81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALK 113
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 17-129 1.60e-27

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: 101.26  E-value: 1.60e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILD-AEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:cd17536     1 VLIVDDEPLIREGLKKLIDwEELGFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIILS 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:cd17536    81 GYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALE 114
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 15-117 2.49e-27

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: 100.93  E-value: 2.49e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVL 94
Cdd:cd17541     1 IRVLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERPTP-VVMV 79

                          90       100
                  ....*....|....*....|....*
gi 1184845659  95 T--TFENDDHVLDALRAGAHGFLLK 117
Cdd:cd17541    80 SslTEEGAEITLEALELGAVDFIAK 104
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
17-206 1.13e-26

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 101.88  E-value: 1.13e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVaRARP-DVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:PRK09935    6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYL-RTRPvDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLS 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLlFPDAVRRLATAHPPTGDALRGARLTEREGEVLRLVAQ 175
Cdd:PRK09935   85 SKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTF-FPSETLNYIKSNKCSTNSSTDTVLSNREVTILRYLVS 163

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1184845659 176 GLSNAEIAAELYLGVETVRTHVGNVLAKLGV 206
Cdd:PRK09935  164 GLSNKEIADQLLLSNKTVSAHKSNIYGKLGL 194
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 16-174 1.36e-26

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 102.20  E-value: 1.36e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:COG3279     3 KILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIFTT 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1184845659  96 TFenDDHVLDALRAGAHGFLLKRARPEEVAQAVRvvargesllfpDAVRRLATAHPPTGDALRGARLTEREGEVLRLVA 174
Cdd:COG3279    83 AY--DEYALEAFEVNAVDYLLKPIDEERLAKALE-----------KAKERLEAKAAAEASPEEKDRIFVKSGGKLVKIP 148
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 15-131 1.68e-25

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: 96.19  E-value: 1.68e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILdAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:cd17542     1 KKVLIVDDAAFMRMMLKDIL-TKAGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMC 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVV 131
Cdd:cd17542    80 SAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 17-131 3.37e-24

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


Pssm-ID: 381157 [Multi-domain]  Cd Length: 117  Bit Score: 92.72  E-value: 3.37e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd19930     1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTT 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVV 131
Cdd:cd19930    81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTV 115
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 15-130 8.58e-24

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: 91.71  E-value: 8.58e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEpDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVL 94
Cdd:cd19932     1 VRVLIAEDEALIRMDLREMLEEA-GYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIAP-IVLL 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRV 130
Cdd:cd19932    79 TAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIEM 114
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 151-222 2.45e-23

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: 89.25  E-value: 2.45e-23
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1184845659 151 PPTGDALRGARLTEREGEVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRAYESGFV 222
Cdd:COG5905     2 MPSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLL 73
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 160-216 6.49e-23

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 87.58  E-value: 6.49e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1184845659  160 ARLTEREGEVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRA 216
Cdd:smart00421   2 ASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 17-129 2.84e-22

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: 87.59  E-value: 2.84e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd17532     1 ALIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVFVTA 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1184845659  97 FenDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:cd17532    81 Y--DEYAVEAFELNAVDYLLKPFSEERLAEALA 111
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 16-149 2.93e-22

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 88.10  E-value: 2.93e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:COG4565     5 RVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDVIVIT 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLLFPDAVRRLATA 149
Cdd:COG4565    85 AARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLLREDQEEDLPEA 138
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
14-178 4.92e-22

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 92.13  E-value: 4.92e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  14 TVRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLV 93
Cdd:PRK00742    3 KIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLNPDVITLDVEMPVMDGLDALEKIMRLRPTPVVMV 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  94 LT-TFENDDHVLDALRAGAHGFLLKRARP---------EEVAQAVRVVARGESLLFPDAVRRLATAHPPTGDALRGARLT 163
Cdd:PRK00742   83 SSlTERGAEITLRALELGAVDFVTKPFLGislgmdeykEELAEKVRAAARARVRALPPRAAAAARAAAAAPAALAAAPLL 162

                         170
                  ....*....|....*
gi 1184845659 164 ERegevlRLVAQGLS 178
Cdd:PRK00742  163 SS-----KLVAIGTS 172
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 16-207 8.12e-22

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: 88.86  E-value: 8.12e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:COG0745     3 RILVVEDDPDIRELLADALERE-GYEVD-TAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIMLT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR---GESLLFPDAVRRLATAHPPTGDALrgaRLTEREGEVLRL 172
Cdd:COG0745    81 ARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRrraAEVLRVGDLLDLAAREVTRDGEPV---ELTPKEFRLLEL 157

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1184845659 173 VA----QGLSNAEIAAEL----YLGVETVRTHVGNVLAKLGVR 207
Cdd:COG0745   158 LMrnpgRVVSREQLLEEVwgydYGDDRTVDVHISRLRKKLEDD 200
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 16-129 2.51e-21

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: 85.67  E-value: 2.51e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPR--VLV 93
Cdd:COG0784     7 RILVVDDNPDNRELLRRLLERL-GYEVT-TAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRALPRLPDipIIA 84

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1184845659  94 LTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:COG0784    85 LTAYADEEDRERALEAGADDYLTKPVDPEELLEALR 120
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 14-149 4.23e-21

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


Pssm-ID: 442920 [Multi-domain]  Cd Length: 179  Bit Score: 86.50  E-value: 4.23e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  14 TVRVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPR--V 91
Cdd:COG3706     1 PARILVVDDDPTNRKLLRRLLEAA-GYEVV-EAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRADPRTADipI 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1184845659  92 LVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR--GES--LLFPDAVRRLATA 149
Cdd:COG3706    79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVARygGEEfaILLPGTDLEGALA 140
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 16-133 1.41e-20

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: 85.39  E-value: 1.41e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILdAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVLT 95
Cdd:COG3707     5 RVLVVDDEPLRRADLREGL-REAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERPAP-VILLT 82

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:COG3707    83 AYSDPELIERALEAGVSAYLVKPLDPEDLLPALELALA 120
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
18-205 2.88e-20

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 84.95  E-value: 2.88e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  18 VLVDDEPLVRAGLRVILDAEpDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVLTTF 97
Cdd:PRK09958    4 IIIDDHPLAIAAIRNLLIKN-DIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSG-IIIIVSA 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  98 END----DHVLDalrAGAHGFLLKRARPEEVAQAVRVVARGESlLFPDAVRRLATAHppTGDALRGARLTEREGEVLRLV 173
Cdd:PRK09958   82 KNDhfygKHCAD---AGANGFVSKKEGMNNIIAAIEAAKNGYC-YFPFSLNRFVGSL--TSDQQKLDSLSKQEISVMRYI 155

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1184845659 174 AQGLSNAEIAAELYLGVETVRTHVGNVLAKLG 205
Cdd:PRK09958  156 LDGKDNNDIAEKMFISNKTVSTYKSRLMEKLE 187
PRK11697 PRK11697
two-component system response regulator BtsR;
16-134 3.61e-20

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 85.28  E-value: 3.61e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATrALLARDGAPRVLVLT 95
Cdd:PRK11697    3 KVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLELV-GMLDPEHMPYIVFVT 81

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1184845659  96 TFenDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARG 134
Cdd:PRK11697   82 AF--DEYAIKAFEEHAFDYLLKPIDPARLAKTLARLRQE 118
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 16-129 4.85e-20

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: 87.33  E-value: 4.85e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:COG2204     4 RILVVDDDPDIRRLLKELLERA-GYEVE-TAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVILLT 81

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:COG2204    82 GYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVE 115
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 19-117 4.95e-20

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: 81.12  E-value: 4.95e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  19 LVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTTFE 98
Cdd:cd00156     2 IVDDDPAIRELLKSLLEREG--YEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKA 79

                          90
                  ....*....|....*....
gi 1184845659  99 NDDHVLDALRAGAHGFLLK 117
Cdd:cd00156    80 DEEDAVRALELGADDYLVK 98
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 162-216 2.33e-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: 78.35  E-value: 2.33e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1184845659 162 LTEREGEVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRA 216
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYA 55
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 16-171 3.53e-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: 82.52  E-value: 3.53e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPR--VLV 93
Cdd:COG3437     8 TVLIVDDDPENLELLRQLLRTL-GYDVV-TAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRADPSTRDipVIF 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  94 LTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLLF--PDAVRRLATAHP---------PTGDALRGARL 162
Cdd:COG3437    86 LTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRLQRelDDLVLYLKLAAPlhdigkigiPDAILLKPGKL 165


                  ....*....
gi 1184845659 163 TEREGEVLR 171
Cdd:COG3437   166 TPEEWEITH 174
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
15-178 8.28e-19

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 83.39  E-value: 8.28e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:PRK12555    1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRIMAERPCPILIVT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  95 TTFE-NDDHVLDALRAGAHGFLLK---------RARPEEVAQAVRVVARgesLLfpdaVRRLATAHPPTGDALRGARLTE 164
Cdd:PRK12555   81 SLTErNASRVFEAMGAGALDAVDTptlgigaglEEYAAELLAKIDQIGR---LL----GRRLAPAAAPAAASAAPFRTTP 153

                         170
                  ....*....|....
gi 1184845659 165 regevlRLVAQGLS 178
Cdd:PRK12555  154 ------RLVAIGAS 161
Spo0A COG5801
Stage 0 sporulation initiation regulator Spo0A (response regulator, REC-HTH domains) [Cell ...
 15-137 1.07e-18

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


Pssm-ID: 444503 [Multi-domain]  Cd Length: 264  Bit Score: 81.77  E-value: 1.07e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRAL--LARDGAPRVL 92
Cdd:COG5801     5 IKVLIADDNREFCELLEEYLSSQPDMEVVGVAYNGLEALELIEEKKPDVVILDIIMPHLDGLGVLEKLreMNLEKRPKVI 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1184845659  93 VLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESL 137
Cdd:COG5801    85 MLTAFGQEDITQRAVELGADYYILKPFDLDVLAERIRQLAGGKAE 129
GerE pfam00196
Bacterial regulatory proteins, luxR family;
162-216 2.26e-18

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 75.70  E-value: 2.26e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1184845659 162 LTEREGEVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRA 216
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 14-206 1.17e-17

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 78.34  E-value: 1.17e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  14 TVRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMP---RVDGIAATRALLARDGAPR 90
Cdd:PRK10840    3 NMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMPgdkYGDGITLIKYIKRHFPSLS 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  91 VLVLTtFENDDHVLDA-LRAGAHGFLLKRARPEEVAQAVRVVARGESLLfPDAVRRLATAHPPTGDALRgaRLTEREGEV 169
Cdd:PRK10840   83 IIVLT-MNNNPAILSAvLDLDIEGIVLKQGAPTDLPKALAALQKGKKFT-PESVSRLLEKISAGGYGDK--RLSPKESEV 158

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1184845659 170 LRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGV 206
Cdd:PRK10840  159 LRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGV 195
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 15-134 1.17e-15

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


Pssm-ID: 131922 [Multi-domain]  Cd Length: 262  Bit Score: 73.67  E-value: 1.17e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRAL--LARDGAPRVL 92
Cdd:TIGR02875   3 IRIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLneIELSARPRVI 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1184845659  93 VLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARG 134
Cdd:TIGR02875  83 MLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWG 124
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 16-124 1.62e-15

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: 69.78  E-value: 1.62e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVGeAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRAL--LARDGAPRVLV 93
Cdd:cd17551     2 RILIVDDNPTNLLLLEALLRSAGYLEVVS-FTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLraLPGLEDVPIVM 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1184845659  94 LTTFENDDHVLDALRAGAHGFLLKRARPEEV 124
Cdd:cd17551    81 ITADTDREVRLRALEAGATDFLTKPFDPVEL 111
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
16-129 6.56e-15

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 72.96  E-value: 6.56e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:PRK11361    6 RILIVDDEDNVRRMLSTAFALQ-GFETH-CANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMT 83

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:PRK11361   84 AYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQ 117
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 14-117 1.00e-14

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


Pssm-ID: 381109 [Multi-domain]  Cd Length: 108  Bit Score: 67.63  E-value: 1.00e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  14 TVRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGA--PRV 91
Cdd:cd17561     1 KIKVLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLRRMRLEkrPKI 80

                          90       100
                  ....*....|....*....|....*.
gi 1184845659  92 LVLTTFENDDHVLDALRAGAHGFLLK 117
Cdd:cd17561    81 IMLTAFGQEDITQRAVELGASYYILK 106
Spo0F COG5803
Stage 0 sporulation initiation response regulator Spo0F [Cell cycle control, cell division, ...
 16-129 1.29e-14

Stage 0 sporulation initiation response regulator Spo0F [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444505 [Multi-domain]  Cd Length: 119  Bit Score: 67.51  E-value: 1.29e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:COG5803     4 KILIVDDQAGIRMLLKEVLKKE-GYEVF-QAANGKEALEKVKELKPDLVLLDMKMPGMDGIEILKEIKEIDPDIPVIMMT 81

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:COG5803    82 AYGELDMVEEAKELGAKGYFTKPFDIDELREAVN 115
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
44-222 1.28e-13

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 66.70  E-value: 1.28e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  44 GEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTTFENDDHVLDALRAGAHGFLLKRARPEE 123
Cdd:COG2771    10 LLALLLLLLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLA 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659 124 VAQAVRVVARGESLLFPDAVRRLATAHPPTGDALRGARLTEREGEVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAK 203
Cdd:COG2771    90 LLALLAALLARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRK 169

                         170
                  ....*....|....*....
gi 1184845659 204 LGVRDRTQAVVRAYESGFV 222
Cdd:COG2771   170 LGVSSRAELVALALRLGLI 188
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
81-223 5.35e-13

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 64.73  E-value: 5.35e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  81 ALLARDGAPRVLVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARGESLLFPDAVRRLATAHppTGDALRGA 160
Cdd:COG2909    49 DDLRREEAAALLRRRLLPLSEEDAARLAERTEGWARLALDPEEALALLERLLALAEAAGRLLLRALALRA--LGDREEAL 126

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1184845659 161 RLTERegevlRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRAYESGFVR 223
Cdd:COG2909   127 AALRR-----RLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGLLA 184
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 16-117 1.30e-12

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: 62.04  E-value: 1.30e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMP-RVDGIAATRALLARDGAPrVLVL 94
Cdd:cd17534     2 KILIVEDEAIIALDLKEILESL-GYEVVGIADSGEEAIELAEENKPDLILMDINLKgDMDGIEAAREIREKFDIP-VIFL 79

                          90       100
                  ....*....|....*....|...
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLK 117
Cdd:cd17534    80 TAYSDEETLERAKETNPYGYLVK 102
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 17-128 3.45e-12

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: 60.95  E-value: 3.45e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGA---PRVLV 93
Cdd:cd17546     1 VLVVDDNPVNRKVLKKLLEKL-GYEVD-VAENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIRELEGGgrrTPIIA 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1184845659  94 LTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAV 128
Cdd:cd17546    79 LTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 15-117 4.01e-12

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: 61.11  E-value: 4.01e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:cd19925     1 INVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVV 80

                          90       100
                  ....*....|....*....|...
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLK 117
Cdd:cd19925    81 TAANDVETVREALRLGVVDYLIK 103
PRK10100 PRK10100
transcriptional regulator CsgD;
63-218 6.63e-12

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 62.58  E-value: 6.63e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  63 VVLMDVRMPRVDGIAATRALLAR-DGAPRVLVLTTfeNDDHVLDALRAGAH--GFLLKRARPEEVAQAVRVVARGESLlF 139
Cdd:PRK10100   55 IILLDMMEADKKLIHYWQDTLSRkNNNIKILLLNT--PEDYPYREIENWPHinGVFYAMEDQERVVNGLQGVLRGECY-F 131

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659 140 PDAVRRLATAHPPT--GDALRGARLTEREGEVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRAY 217
Cdd:PRK10100  132 TQKLASYLITHSGNyrYNSTESALLTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQAVSWAN 211


                  .
gi 1184845659 218 E 218
Cdd:PRK10100  212 D 212
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 16-117 6.93e-12

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: 59.82  E-value: 6.93e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLV-- 93
Cdd:cd17538     1 KILVVDDEPANRELLEALLSAE-GYEVL-TADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKEDPETRHIPVim 78

                          90       100
                  ....*....|....*....|....
gi 1184845659  94 LTTFENDDHVLDALRAGAHGFLLK 117
Cdd:cd17538    79 ITALDDREDRIRGLEAGADDFLSK 102
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 16-133 1.56e-11

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: 59.74  E-value: 1.56e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEP----LVRAGLRvilDAEPDLEVVgEAGDGAEV------PGVVARA-RPDVVLMDVRMPRVDGIAATRALLA 84
Cdd:cd17557     1 TILLVEDNPgdaeLIQEAFK---EAGVPNELH-VVRDGEEAldflrgEGEYADApRPDLILLDLNMPRMDGFEVLREIKA 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1184845659  85 RdgaPR-----VLVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd17557    77 D---PDlrripVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSLGE 127
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
150-216 1.62e-11

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 63.04  E-value: 1.62e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1184845659 150 HPPTGDALRGARLTEREGEVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRA 216
Cdd:PRK04841  827 HPDVPELIRTSPLTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQEAVQHA 893
fixJ PRK09390
response regulator FixJ; Provisional
 12-205 1.96e-11

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 60.79  E-value: 1.96e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  12 TGTVRVVLVDDEPLVRAGLRVILDAEpDLEVVGEAGDGAEVpGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRV 91
Cdd:PRK09390    1 SDKGVVHVVDDDEAMRDSLAFLLDSA-GFEVRLFESAQAFL-DALPGLRFGCVVTDVRMPGIDGIELLRRLKARGSPLPV 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  92 LVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVvargesllfpdAVRRLATAHPPTGDA----LRGARLTEREG 167
Cdd:PRK09390   79 IVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIER-----------ALAQAPEAAKSEAVAadirARIASLSERER 147

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1184845659 168 EVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLG 205
Cdd:PRK09390  148 QVMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTKMQ 185
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 17-129 5.30e-11

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: 58.27  E-value: 5.30e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEpDLEVVGeAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd17549     1 VLLVDDDADVREALQQTLELA-GFRVRA-FADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELDPDLPVILITG 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:cd17549    79 HGDVPMAVEAMRAGAYDFLEKPFDPERLLDVVR 111
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 17-133 5.89e-11

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: 57.78  E-value: 5.89e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLRFEG--YEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLTA 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd17627    79 RDSVSDRVAGLDAGADDYLVKPFALEELLARVRALLR 115
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 16-131 6.19e-11

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: 57.70  E-value: 6.19e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILdAEPDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDG---IAATRALLARDGAPrVL 92
Cdd:cd17562     2 KILAVDDSASIRQMVSFTL-RGAGYEVV-EAADGRDALSKAQSKKFDLIITDQNMPNMDGielIKELRKLPAYKFTP-IL 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1184845659  93 VLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVV 131
Cdd:cd17562    79 MLTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 16-129 1.00e-10

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


Pssm-ID: 381134 [Multi-domain]  Cd Length: 113  Bit Score: 57.01  E-value: 1.00e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:cd17619     2 HILIVEDEPVTRATLKSYFEQEG--YDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELREQSEVGIILVTG 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1184845659  96 TFENDDHVLdALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:cd17619    80 RDDEVDRIV-GLEIGADDYVTKPFNPRELLVRAK 112
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 15-117 1.70e-10

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: 56.44  E-value: 1.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDaEPDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:cd17555     1 ATILVIDDDEVVRESIAAYLE-DSGFQVL-QAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIVV 78

                          90       100
                  ....*....|....*....|...
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLK 117
Cdd:cd17555    79 SGAGVMSDAVEALRLGAWDYLTK 101
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 19-117 2.29e-10

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


Pssm-ID: 381112 [Multi-domain]  Cd Length: 103  Bit Score: 55.74  E-value: 2.29e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  19 LVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTTFE 98
Cdd:cd17565     3 IVDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMISQVS 82

                          90
                  ....*....|....*....
gi 1184845659  99 NDDHVLDALRAGAHGFLLK 117
Cdd:cd17565    83 DKEMIGKAYQAGIEFFINK 101
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 19-117 3.14e-10

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: 55.11  E-value: 3.14e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  19 LVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTTFE 98
Cdd:cd17574     2 VVEDDEEIAELLSDYLEKE-GYEVD-TAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAKD 79

                          90
                  ....*....|....*....
gi 1184845659  99 NDDHVLDALRAGAHGFLLK 117
Cdd:cd17574    80 EEEDKVLGLELGADDYITK 98
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 16-129 4.87e-10

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


Pssm-ID: 381106 [Multi-domain]  Cd Length: 113  Bit Score: 55.30  E-value: 4.87e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVGeAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:cd17554     2 KILVVDDEENIRELYKEELEDE-GYEVVT-AGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVIICT 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1184845659  96 TFENDDHVLDALRAGAhgFLLKRARPEEVAQAVR 129
Cdd:cd17554    80 AYSEYKSDFSSWAADA--YVVKSSDLTELKETIK 111
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 16-71 3.30e-09

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: 51.42  E-value: 3.30e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1184845659   16 RVVLVDDEPLVRAGLRVILDAEPDleVVGEAGDGAEVPGVVARARPDVVLMDVRMP 71
Cdd:smart00448   2 RILVVDDDPLLRELLKALLEKEGY--EVDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 17-117 5.23e-09

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: 51.78  E-value: 5.23e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVLTT 96
Cdd:cd17620     1 ILVIEDEPQIRRFLRTALEAHG--YRVFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLREWSAVP-VIVLSA 77

                          90       100
                  ....*....|....*....|.
gi 1184845659  97 FENDDHVLDALRAGAHGFLLK 117
Cdd:cd17620    78 RDEESDKIAALDAGADDYLTK 98
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 16-121 9.20e-09

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 53.87  E-value: 9.20e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILdAEPDLEVVGEA-GDGAEVpgVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLvL 94
Cdd:PRK10701    3 KIVFVEDDAEVGSLIAAYL-AKHDIDVTVEPrGDRAEA--TILREQPDLVLLDIMLPGKDGMTICRDLRPKWQGPIVL-L 78

                          90       100
                  ....*....|....*....|....*...
gi 1184845659  95 TTFEND-DHVLdALRAGAHGFLLKRARP 121
Cdd:PRK10701   79 TSLDSDmNHIL-ALEMGACDYILKTTPP 105
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 16-129 9.84e-09

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: 53.00  E-value: 9.84e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEP---------LVRAGLRVILdaepdlevvgeAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARD 86
Cdd:COG4567     6 SLLLVDDDEafarvlaraLERRGFEVTT-----------AASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERD 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1184845659  87 GAPRVLVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:COG4567    75 PDARIVVLTGYASIATAVEAIKLGADDYLAKPADADDLLAALE 117
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 16-82 9.94e-09

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: 51.77  E-value: 9.94e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRAL 82
Cdd:cd17548     1 KILIVEDNPLNMKLARDLLESA-GYEVL-EAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLL 65
PRK10693 PRK10693
two-component system response regulator RssB;
45-183 1.74e-08

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 53.46  E-value: 1.74e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  45 EAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTTFENDDHVLDALRAGAHGFLLKRARP-EE 123
Cdd:PRK10693    2 LAANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLKPVKDlNR 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659 124 VAQAV-----------RVVARGEslLFPD----------AVRRLATAHPPTGDALRGAR-----LT--EREGEVLRLVAq 175
Cdd:PRK10693   82 LREMVfaclypsmfnsRVEEEER--LFRDwdalvdnpaaAAKLLKQLQPPVQQVIAHCRvnyrqLVaaDKPGLVLDIAA- 158


                  ....*...
gi 1184845659 176 gLSNAEIA 183
Cdd:PRK10693  159 -LSDNDLA 165
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 17-111 1.74e-08

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


Pssm-ID: 381147 [Multi-domain]  Cd Length: 103  Bit Score: 50.59  E-value: 1.74e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLArdgAPR-----V 91
Cdd:cd19920     1 ILIVDDVPDNLRLLSELLRAAG--YRVLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKA---DPAtrhipV 75

                          90       100
                  ....*....|....*....|
gi 1184845659  92 LVLTTFENDDHVLDALRAGA 111
Cdd:cd19920    76 IFLTALTDTEDKVKGFELGA 95
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 15-131 2.51e-08

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: 50.80  E-value: 2.51e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILdAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARD---GAPrV 91
Cdd:cd19923     1 MKVLVVDDFSTMRRIIKNLL-KELGFNNVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIRADGalsHLP-V 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1184845659  92 LVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVV 131
Cdd:cd19923    79 LMVTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKI 118
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 17-117 4.35e-08

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: 50.02  E-value: 4.35e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDG--APRVLVL 94
Cdd:cd17598     1 ILIVEDSPTQAEQLKHILEEQG--YKVQVARNGREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKSDPDlkDIPVILL 78

                          90       100
                  ....*....|....*....|...
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLK 117
Cdd:cd17598    79 TTLSDPRDVIRGLECGADNFITK 101
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 16-133 7.50e-08

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: 49.27  E-value: 7.50e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEP-DLEVvgeAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:cd17615     1 RVLVVDDEPNITELLSMALRYEGwDVET---AADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFL 77

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd17615    78 TAKDSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRALLR 116
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 16-129 8.20e-08

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: 49.09  E-value: 8.20e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARD---GAPrVL 92
Cdd:cd17552     3 RILVIDDEEDIREVVQACLEKLAGWEVL-TASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQANPetqSIP-VI 80

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1184845659  93 VLT--TFENDDHVLDALraGAHGFLLKRARPEEVAQAVR 129
Cdd:cd17552    81 LLTakAQPSDRQRFASL--GVAGVIAKPFDPLTLAEQIA 117
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 17-128 9.66e-08

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: 48.99  E-value: 9.66e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARD--GAPRVLVL 94
Cdd:cd17580     1 ILVVDDNEDAAEMLALLLELEG--AEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRELPwlANTPAIAL 78

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLKRARPEEVAQAV 128
Cdd:cd17580    79 TGYGQPEDRERALEAGFDAHLVKPVDPDELIELI 112
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 16-133 1.45e-07

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: 48.90  E-value: 1.45e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDlevVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:cd17596     2 TILVVDDEVRSLEALRRTLEEDFD---VLTAASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVRERWPEVVRIIIS 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1184845659  96 TFENDDHVLDALR-AGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd17596    79 GYTDSEDIIAGINeAGIYQYLTKPWHPDQLLLTVRNAAR 117
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 17-117 2.98e-07

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: 47.49  E-value: 2.98e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd17550     1 ILIVDDEEDIRESLSGILEDEG--YEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMISG 78

                          90       100
                  ....*....|....*....|.
gi 1184845659  97 FENDDHVLDALRAGAHGFLLK 117
Cdd:cd17550    79 HGTIETAVKATKLGAYDFIEK 99
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 16-121 5.57e-07

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


Pssm-ID: 381137 [Multi-domain]  Cd Length: 116  Bit Score: 46.99  E-value: 5.57e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVrAGLRVILDAEPDLEVVGEAgDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVLT 95
Cdd:cd17622     2 RILLVEDDPKL-ARLIADFLESHGFNVVVEH-RGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLRPKYQGP-ILLLT 78

                          90       100
                  ....*....|....*....|....*..
gi 1184845659  96 TFEND-DHVLdALRAGAHGFLLKRARP 121
Cdd:cd17622    79 ALDSDiDHIL-GLELGADDYVVKPVEP 104
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 65-207 5.69e-07

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 48.59  E-value: 5.69e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  65 LMDVRMPRVDGIAATRALLARDGAPRVLVLTTFENDDHVLDALR-AGAHGFLLKrARPEEVAQAVRVVARGESllfpdav 143
Cdd:PRK11475   45 LSAMRSERREGLSCLTELAIKFPRMRRLVIADDDIEARLIGSLSpSPLDGVLSK-ASTLEILQQELFLSLNGV------- 116

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1184845659 144 rRLATAHPPTGDALRGARL---TEREgeVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVR 207
Cdd:PRK11475  117 -RQATDRLNNQWYINQSRMlspTERE--ILRFMSRGYSMPQIAEQLERNIKTIRAHKFNVMSKLGVS 180
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 16-129 6.46e-07

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


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 46.78  E-value: 6.46e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVvgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:cd17553     2 KILIVDDQYGIRILLNEVFNKEGYQTF--QAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMT 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:cd17553    80 AYGELDMIQESKELGALTHFAKPFDIDEIRDAVK 113
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 17-117 1.38e-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: 46.04  E-value: 1.38e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEP-DLEVVGeagDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:cd17572     1 VLLVEDSPSLAALYQEYLSDEGyKVTHVE---TGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVIT 77

                          90       100
                  ....*....|....*....|..
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLK 117
Cdd:cd17572    78 AHGSVDIAVEAMRLGAYDFLEK 99
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 16-129 1.49e-06

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


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 45.54  E-value: 1.49e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVgeAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVLT 95
Cdd:cd17626     2 RILVVDDDAALAEMIGIVLRGEGFDPAF--CGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVCRQIRAESGVP-IVMLT 78

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:cd17626    79 AKSDTVDVVLGLESGADDYVAKPFKPKELVARIR 112
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 17-129 1.67e-06

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: 45.66  E-value: 1.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEpDLEVVGEAgDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd17537     3 VYVVDDDEAVRDSLAFLLRSV-GLAVKTFT-SASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNIPIIFITG 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVR 129
Cdd:cd17537    81 HGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIE 113
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 16-133 3.49e-06

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


Pssm-ID: 381166 [Multi-domain]  Cd Length: 116  Bit Score: 44.67  E-value: 3.49e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVGEaGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:cd19939     1 RILIVEDELELARLTRDYLIKA-GLEVSVF-TDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVREHSHVPILMLTA 78

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1184845659  96 TFENDDHVLdALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd19939    79 RTEEMDRVL-GLEMGADDYLCKPFSPRELLARVRALLR 115
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
62-117 4.35e-06

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 46.56  E-value: 4.35e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1184845659  62 DVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTTFENDDHVLDALRAGAHGFLLK 117
Cdd:PRK10365   51 DLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIK 106
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 16-129 5.54e-06

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: 43.93  E-value: 5.54e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIaatrALL--ARDGAPRV-- 91
Cdd:cd17569     2 TILLVDDEPNILKALKRLLRRE-GYEVL-TATSGEEALEILKQEPVDVVISDQRMPGMDGA----ELLkrVRERYPDTvr 75

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1184845659  92 LVLTTFENDDHVLDALRAGA-HGFLLKRARPEEVAQAVR 129
Cdd:cd17569    76 ILLTGYADLDAAIEAINEGEiYRFLTKPWDDEELKETIR 114
orf27 CHL00148
Ycf27; Reviewed
 16-133 6.04e-06

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 45.86  E-value: 6.04e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEplvrAGLRVILdaEPDLEVVG----EAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrV 91
Cdd:CHL00148    8 KILVVDDE----AYIRKIL--ETRLSIIGyeviTASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIRKESDVP-I 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1184845659  92 LVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:CHL00148   81 IMLTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLR 122
PRK10766 PRK10766
two-component system response regulator TorR;
16-93 6.61e-06

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 45.41  E-value: 6.61e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLV 93
Cdd:PRK10766    4 HILVVEDEPVTRARLQGYFEQEG--YTVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTRELRSRSTVGIILV 79
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 15-134 8.79e-06

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: 43.94  E-value: 8.79e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEPDLEvVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRV--L 92
Cdd:cd17575     1 IMVLLVDDQAIIGEAVRRALADEEDID-FHYCSDPTEAIEVASQIKPTVILQDLVMPGVDGLTLVRFFRANPATRDIpiI 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1184845659  93 VLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVARG 134
Cdd:cd17575    80 VLSTKEEPEVKSEAFALGANDYLVKLPDKIELVARIRYHSRS 121
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 16-127 1.06e-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: 43.29  E-value: 1.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:cd17593     2 KVLICDDSSMARKQLARALPADWDVEIT-FAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVVS 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEVAQA 127
Cdd:cd17593    81 GDVQPEAKERVLELGALAFLKKPFDPEKLAQL 112
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 15-123 1.20e-05

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: 43.28  E-value: 1.20e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARaRPDV--VLMDVRMPRVDGIAATRALLARDGAPRVL 92
Cdd:cd17544     1 IKVLVVDDSATSRNHLRALLRRH-NFQVL-EAANGQEALEVLEQ-HPDIklVITDYNMPEMDGFELVREIRKKYSRDQLA 77

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1184845659  93 VLTTFENDDHVLDA--LRAGAHGFLLKRARPEE 123
Cdd:cd17544    78 IIGISASGDNALSArfIKAGANDFLTKPFLPEE 110
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 17-117 1.76e-05

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


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 42.14  E-value: 1.76e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILdAEPDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd19926     1 VLVVDDEPDIRELLEITL-GRMGLDVR-SARNVKEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQRLPQTPVAVITA 78

                          90       100
                  ....*....|....*....|.
gi 1184845659  97 FENDDHVLDALRAGAHGFLLK 117
Cdd:cd19926    79 YGSLDTAIEALKAGAFDFLTK 99
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 16-127 1.93e-05

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


Pssm-ID: 381111 [Multi-domain]  Cd Length: 112  Bit Score: 42.43  E-value: 1.93e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEP---------LVRAGLRVILdaepdlevvgeAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARD 86
Cdd:cd17563     2 SLLLVDDDEvfaerlaraLERRGFEVET-----------AHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQ 70

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1184845659  87 GAPRVLVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQA 127
Cdd:cd17563    71 PDARIVVLTGYASIATAVEAIKLGADDYLAKPADADEILAA 111
PRK15347 PRK15347
two component system sensor kinase;
30-132 1.99e-05

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 45.02  E-value: 1.99e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  30 LRVIL--DAEPDLEVVGE-----------AGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATR----ALLARDGAPRVL 92
Cdd:PRK15347  691 LQILLvdDVETNRDIIGMmlvelgqqvttAASGTEALELGRQHRFDLVLMDIRMPGLDGLETTQlwrdDPNNLDPDCMIV 770

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1184845659  93 VLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVA 132
Cdd:PRK15347  771 ALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARALELAA 810
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 17-117 2.07e-05

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


Pssm-ID: 381163 [Multi-domain]  Cd Length: 99  Bit Score: 42.05  E-value: 2.07e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVLTT 96
Cdd:cd19936     1 IALVDDDRNILTSVSMALEAEG--FSVETYTDGASALDGLNARPPDLAILDIKMPRMDGMELLQRLRQKSTLP-VIFLTS 77

                          90       100
                  ....*....|....*....|.
gi 1184845659  97 FENDDHVLDALRAGAHGFLLK 117
Cdd:cd19936    78 KDDEIDEVFGLRMGADDYITK 98
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 17-133 2.61e-05

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


Pssm-ID: 381139 [Multi-domain]  Cd Length: 115  Bit Score: 42.09  E-value: 2.61e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPDleVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd17624     1 ILLVEDDALLGDGLKTGLRKAGY--AVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILTA 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd17624    79 RDGVDDRVAGLDAGADDYLVKPFALEELLARLRALLR 115
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 48-133 2.71e-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: 42.26  E-value: 2.71e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  48 DGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTTFENDDHVLDALRAGAHGFLLKrarPEEVAQA 127
Cdd:cd19919    32 NAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIMTAHSDLDSAVSAYQGGAFEYLPK---PFDIDEA 108


                  ....*.
gi 1184845659 128 VRVVAR 133
Cdd:cd19919   109 VALVER 114
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 16-131 4.30e-05

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


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 41.59  E-value: 4.30e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:cd19938     1 RILIVEDEPKLAQLLIDYLRAAG--YAPTLLAHGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREIRRFSDVPIIMVTA 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1184845659  96 TFENDDHVLdALRAGAHGFLLKRARPEEVAQAVRVV 131
Cdd:cd19938    79 RVEEIDRLL-GLELGADDYICKPYSPREVVARVKAI 113
PRK11173 PRK11173
two-component response regulator; Provisional
 14-123 7.63e-05

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 42.31  E-value: 7.63e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  14 TVRVVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALlaRDGAPRVLV 93
Cdd:PRK11173    3 TPHILIVEDELVTRNTLKSIFEAEG--YDVFEATDGAEMHQILSENDINLVIMDINLPGKNGLLLAREL--REQANVALM 78

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1184845659  94 -LTTFEND-DHVLdALRAGAHGFLLKRARPEE 123
Cdd:PRK11173   79 fLTGRDNEvDKIL-GLEIGADDYITKPFNPRE 109
PRK10610 PRK10610
chemotaxis protein CheY;
15-117 9.36e-05

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 41.11  E-value: 9.36e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  15 VRVVLVDDEPLVRAGLRVILDaEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLArDGAPR---V 91
Cdd:PRK10610    6 LKFLVVDDFSTMRRIVRNLLK-ELGFNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRA-DGAMSalpV 83

                          90       100
                  ....*....|....*....|....*.
gi 1184845659  92 LVLTTFENDDHVLDALRAGAHGFLLK 117
Cdd:PRK10610   84 LMVTAEAKKENIIAAAQAGASGYVVK 109
PRK10816 PRK10816
two-component system response regulator PhoP;
16-138 1.07e-04

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 42.03  E-value: 1.07e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLevVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:PRK10816    2 RVLVVEDNALLRHHLKVQLQDAGHQ--VDAAEDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLT 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1184845659  96 TFENDDHVLDALRAGAHGFLLKRARPEEvaqavrVVARGESLL 138
Cdd:PRK10816   80 ARESWQDKVEVLSAGADDYVTKPFHIEE------VMARMQALM 116
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 17-133 1.20e-04

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: 40.34  E-value: 1.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDAG--YVVDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLILTA 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1184845659  97 FENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd19934    79 RDSWQDKVEGLDAGADDYLTKPFHIEELLARLRALIR 115
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 48-136 1.28e-04

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 42.17  E-value: 1.28e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  48 DGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTTFENDDHVLDALRAGAHGFLLKrarPEEVAQA 127
Cdd:PRK10923   35 NGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPK---PFDIDEA 111


                  ....*....
gi 1184845659 128 VRVVARGES 136
Cdd:PRK10923  112 VALVERAIS 120
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 16-117 1.97e-04

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: 39.41  E-value: 1.97e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLevVGEAGDGAEVPGVVARARP-DVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:cd18160     1 TILLADDEPSVRKFIVTTLKKAGYA--VTEAESGAEALEKLQQGKDiDIVVTDIVMPEMDGIELAREARKIDPDVKILFI 78

                          90       100
                  ....*....|....*....|...
gi 1184845659  95 TTFENDDHVLDALRAGAHGFLLK 117
Cdd:cd18160    79 SGGAAAAPELLSDAVGDNATLKK 101
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 16-138 3.52e-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: 39.15  E-value: 3.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEP---------LVRAGLRVIldaepdlevvgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRaLLARD 86
Cdd:cd17618     2 TILIVEDEPairemiafnLERAGFDVV-----------EAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIR-RLKRD 69

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1184845659  87 GAPR---VLVLTTFENDDHVLDALRAGAHGFLLKRARPEEvaqavrVVARGESLL 138
Cdd:cd17618    70 EMTRdipIIMLTARGEEEDKVRGLEAGADDYITKPFSPRE------LVARIKAVL 118
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 17-117 4.10e-04

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


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 38.50  E-value: 4.10e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEpDLEVVGeAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRaLLARDGAPR---VLV 93
Cdd:cd17602     1 VACVDDRPSIQKMIEYFLEKQ-GFRVVV-IDDPLRALTTLLNSKPDLILIDIDMPDLDGYELCS-LLRKSSALKdtpIIM 77

                          90       100
                  ....*....|....*....|....*..
gi 1184845659  94 LTtfeNDDHVLDALRA---GAHGFLLK 117
Cdd:cd17602    78 LT---GKDGLVDRIRAkmaGASGYLTK 101
pleD PRK09581
response regulator PleD; Reviewed
 14-117 4.39e-04

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 40.65  E-value: 4.39e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  14 TVRVVLVDDEPLVRAGLRVILDAEPdLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLArDGA----P 89
Cdd:PRK09581    2 TARILVVDDIPANVKLLEAKLLAEY-YTVL-TASSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKS-DPAtthiP 78

                          90       100
                  ....*....|....*....|....*...
gi 1184845659  90 RVLVlTTFENDDHVLDALRAGAHGFLLK 117
Cdd:PRK09581   79 VVMV-TALDDPEDRVRGLEAGADDFLTK 105
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 17-133 5.04e-04

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: 38.44  E-value: 5.04e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEPDLevVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVLTT 96
Cdd:cd17623     1 ILLIDDDRELTELLTEYLEMEGFN--VRAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKTSQVP-VLMLTA 77

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1184845659  97 FEND-DHVLdALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd17623    78 RGDDiDRIL-GLELGADDYLPKPFNPRELVARIRAILR 114
PRK14084 PRK14084
DNA-binding response regulator;
16-133 5.17e-04

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 40.12  E-value: 5.17e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLT 95
Cdd:PRK14084    2 KALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEALLINQYDIIFLDINLMDESGIELAAKIQKMKEPPAIIFAT 81

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1184845659  96 TfeNDDHVLDALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:PRK14084   82 A--HDQFAVKAFELNATDYILKPFEQKRIEQAVNKVRA 117
PRK15115 PRK15115
response regulator GlrR; Provisional
 14-175 5.20e-04

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 40.59  E-value: 5.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  14 TVRVVLVDDEPLVRAGLRVILDAEPdlEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLV 93
Cdd:PRK15115    5 PAHLLLVDDDPGLLKLLGMRLTSEG--YSVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVII 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  94 LTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRvvargesllfpDAvrrLATAHPPTGDALRGARLTeREGEVLRLV 173
Cdd:PRK15115   83 LTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAID-----------DA---LEQSAPATDERWREAIVT-RSPLMLRLL 147


                  ..
gi 1184845659 174 AQ 175
Cdd:PRK15115  148 EQ 149
REC_PhyR cd17540
phosphoacceptor receiver (REC) domain of response regulator PhyR and similar proteins; PhyR is ...
 16-93 7.34e-04

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


Pssm-ID: 381095 [Multi-domain]  Cd Length: 117  Bit Score: 38.00  E-value: 7.34e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDaepDL--EVVGEAGDGAEVPGVVARARPDVVLMDVRMP-RVDGIAATRALLARDGAPRVL 92
Cdd:cd17540     2 RVLIIEDEPLIAMDLEQIVE---DLghQVVGIARTRDEAVALARRERPDLILADIQLAdGSSGIDAVNEILTTHDVPVIF 78


                  .
gi 1184845659  93 V 93
Cdd:cd17540    79 V 79
PRK10188 PRK10188
transcriptional regulator SdiA;
161-222 8.92e-04

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 39.38  E-value: 8.92e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1184845659 161 RLTEREGEVLRLVAQGLSNAEIAAELYLGVETVRTHVGNVLAKLGVRDRTQAVVRAYESGFV 222
Cdd:PRK10188  179 NFSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQIACYAAATGLI 240
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 48-133 1.12e-03

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 38.90  E-value: 1.12e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  48 DGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTTFENDDHVLdALRAGAHGFLLKRARPEEVAQA 127
Cdd:PRK10710   42 HGDEVLPYVRQTPPDLILLDLMLPGTDGLTLCREIRRFSDIPIVMVTAKIEEIDRLL-GLEIGADDYICKPYSPREVVAR 120


                  ....*.
gi 1184845659 128 VRVVAR 133
Cdd:PRK10710  121 VKTILR 126
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 16-81 1.26e-03

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 39.45  E-value: 1.26e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1184845659  16 RVVLVDDEPlvrAGLRVI---LDAEPDLEVVGEAGDGAevpgvVARARP---DVVLMDVRMPRVDGIAATRA 81
Cdd:PRK11107  669 TVMAVDDNP---ANLKLIgalLEEQVEHVVLCDSGHQA-----VEQAKQrpfDLILMDIQMPGMDGIRACEL 732
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 17-75 1.35e-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: 36.97  E-value: 1.35e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1184845659  17 VVLVDDEPLVRAGLRVILDaEPDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDG 75
Cdd:cd19927     1 ILLVDDDPGIRLAVKDYLE-DQGFTVI-AASNGLEALDLLNQYIPDLIISDIIMPGVDG 57
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
16-133 1.45e-03

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 38.63  E-value: 1.45e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVaRARPDVVLMDVRMPRVDGIAATRALLARDGAPrVLVLT 95
Cdd:PRK10955    3 KILLVDDDRELTSLLKELLEME-GFNVI-VAHDGEQALDLL-DDSIDLLLLDVMMPKKNGIDTLKELRQTHQTP-VIMLT 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1184845659  96 TFEND-DHVLdALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:PRK10955   79 ARGSElDRVL-GLELGADDYLPKPFNDRELVARIRAILR 116
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 17-180 1.50e-03

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 38.63  E-value: 1.50e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDaepdlevvgeaGDGAEV-------PGVVARA--RPDVVLMDVRMPRVDGIAATRALLARDG 87
Cdd:PRK10529    4 VLIVEDEQAIRRFLRTALE-----------GDGMRVfeaetlqRGLLEAAtrKPDLIILDLGLPDGDGIEFIRDLRQWSA 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  88 APrVLVLTTFENDDHVLDALRAGAHGFLLKRARPEEVAQAVRVvargesllfpdAVRRLATAHPP---------TGDALr 158
Cdd:PRK10529   73 IP-VIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRV-----------ALRRHSATPAPdplvkfsdvTVDLA- 139

                         170       180
                  ....*....|....*....|....*....
gi 1184845659 159 gARLTEREGEVL-------RLVAQGLSNA 180
Cdd:PRK10529  140 -ARVIHRGEEEVhltpiefRLLAVLLNNA 167
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 17-123 1.59e-03

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


Pssm-ID: 381121 [Multi-domain]  Cd Length: 115  Bit Score: 37.22  E-value: 1.59e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVIL-----------DAEPDLEVVGEAGDGAevpgvvararpDVVLMDVRMPRVDGIAATRALLAR 85
Cdd:cd17584     1 VLVVDDDPTCLAILKRMLlrcgyqvttctDAEEALSMLRENKDEF-----------DLVITDVHMPDMDGFEFLELIRLE 69

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1184845659  86 DGAPrVLVLTTFENDDHVLDALRAGAHGFLLKRARPEE 123
Cdd:cd17584    70 MDLP-VIMMSADGSTSTVMKGLAHGACDYLLKPVSIED 106
PRK06930 PRK06930
positive control sigma-like factor; Validated
 155-197 1.72e-03

positive control sigma-like factor; Validated


Pssm-ID: 180757 [Multi-domain]  Cd Length: 170  Bit Score: 37.79  E-value: 1.72e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1184845659 155 DALrgARLTEREGEVLRL-VAQGLSNAEIAAELYLGVETVRTHV 197
Cdd:PRK06930  110 DAL--SVLTEREKEVYLMhRGYGLSYSEIADYLNIKKSTVQSMI 151
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 16-116 1.83e-03

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: 37.04  E-value: 1.83e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEPDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRAlLARDGAPRVLVLT 95
Cdd:cd17530     2 RVLVLDDDPFQCMMAATILEDLGPGNVD-EADDGREALVILLCNAPDIIICDLKMPDMDGIEFLRH-LAESHSNAAVILM 79

                          90       100
                  ....*....|....*....|...
gi 1184845659  96 TfENDDHVLDALR--AGAHGFLL 116
Cdd:cd17530    80 S-GLDGGILESAEtlAGANGLNL 101
dpiA PRK10046
two-component response regulator DpiA; Provisional
 11-128 3.11e-03

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 37.69  E-value: 3.11e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  11 VTGTVRVVLVDDEPLVRAGLRVILDAEPDLEVVGEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLaRDGAPR 90
Cdd:PRK10046    1 MTAPLTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIERFKPGLILLDNYLPDGRGINLLHELV-QAHYPG 79

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1184845659  91 VLVLTTFEND-DHVLDALRAGAHGFLLKRARPEEVAQAV 128
Cdd:PRK10046   80 DVVFTTAASDmETVSEAVRCGVFDYLIKPIAYERLGQTL 118
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 17-117 3.29e-03

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


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 36.20  E-value: 3.29e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAE---------VPGVVARARPDVVLMDVRMPRVDGIAATrALLARDg 87
Cdd:cd19924     1 ILVVDDSPTARKQLRDLLKNL-GFEIA-EAVDGEEalnklenlaKEGNDLSKELDLIITDIEMPKMDGYELT-FELRDD- 76

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1184845659  88 aPR-----VLVLTTFENDDHVLDALRAGAHGFLLK 117
Cdd:cd19924    77 -PRlanipVILNSSLSGEFSRARGKKVGADAYLAK 110
PRK10841 PRK10841
two-component system sensor histidine kinase RcsC;
13-82 3.58e-03

two-component system sensor histidine kinase RcsC;


Pssm-ID: 182772 [Multi-domain]  Cd Length: 924  Bit Score: 38.03  E-value: 3.58e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1184845659  13 GTVRVVLVDDEPLVRaglRVILDaepDLEVVG----EAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRAL 82
Cdd:PRK10841  800 DDMMILVVDDHPINR---RLLAD---QLGSLGyqckTANDGVDALNVLSKNHIDIVLTDVNMPNMDGYRLTQRL 867
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 17-133 4.09e-03

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


Pssm-ID: 381130 [Multi-domain]  Cd Length: 115  Bit Score: 35.86  E-value: 4.09e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  17 VVLVDDEPLVRAGLRVILDAEpDLEVVgEAGDGAEVPGVVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVLTT 96
Cdd:cd17614     1 ILVVDDEKPISDILKFNLTKE-GYEVV-TAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVRKTSNVPIIMLTAK 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1184845659  97 FENDDHVLdALRAGAHGFLLKRARPEEVAQAVRVVAR 133
Cdd:cd17614    79 DSEVDKVL-GLELGADDYVTKPFSNRELLARVKANLR 114
Sigma70_r4 cd06171
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in ...
 160-204 5.24e-03

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


Pssm-ID: 100119 [Multi-domain]  Cd Length: 55  Bit Score: 34.00  E-value: 5.24e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1184845659 160 ARLTEREGEVLRL-VAQGLSNAEIAAELYLGVETVRTHVGNVLAKL 204
Cdd:cd06171     9 DKLPEREREVILLrFGEGLSYEEIAEILGISRSTVRQRLHRALKKL 54
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 16-156 6.25e-03

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 36.48  E-value: 6.25e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659  16 RVVLVDDEPLVRAGLRVILDAEP-DLEVVGEAGDGAEVpgvVARARPDVVLMDVRMPRVDGIAATRALLARDGAPRVLVL 94
Cdd:PRK11083    5 TILLVEDEQAIADTLVYALQSEGfTVEWFERGLPALDK---LRQQPPDLVILDVGLPDISGFELCRQLLAFHPALPVIFL 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1184845659  95 TTFEND-DHVLdALRAGAHGFLLKRARPEEVAQAVRVVARgesllfpdAVRRLATAHPPTGDA 156
Cdd:PRK11083   82 TARSDEvDRLV-GLEIGADDYVAKPFSPREVAARVRTILR--------RVKKFAAPSPVIRIG 135
PRK12519 PRK12519
RNA polymerase sigma factor; Provisional
 104-204 8.48e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 237125 [Multi-domain]  Cd Length: 194  Bit Score: 36.19  E-value: 8.48e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1184845659 104 LDALRA-GAHGFLLKRARPEEVAQAVRVVARgESLLFPDAVRRLATAHpptgdalrgARLTEREGEVLRL-VAQGLSNAE 181
Cdd:PRK12519   93 IDRLRSrRSRQRLLERWQQELLGEASEDTPL-EQASLAERSQRVQTAL---------AQLPESQRQVLELaYYEGLSQSE 162

                          90       100
                  ....*....|....*....|...
gi 1184845659 182 IAAELYLGVETVRTHVGNVLAKL 204
Cdd:PRK12519  163 IAKRLGIPLGTVKARARQGLLKL 185
 
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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