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Conserved domains on  [gi|857324843|gb|KMN92775|]
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LuxR family transcriptional regulator [Bacillus subtilis]

Protein Classification

response regulator transcription factor( domain architecture ID 11450879)

response regulator transcription factor with a signal receiver (REC) domain and a LuxR family helix-turn-helix (HTH) domain that may be part of a two-component regulatory system; similar to Staphylococcus aureus response regulator VraR

CATH:  1.10.10.10
Gene Ontology:  GO:0000160|GO:0006355|GO:0003677
PubMed:  10966457
SCOP:  3001179

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-120 4.49e-48

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: 153.82  E-value: 4.49e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHS 120
Cdd:cd17535   81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 158-217 2.12e-22

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: 86.55  E-value: 2.12e-22
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843 158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYGV 217
Cdd:COG5905   13 LTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGL 72
 
Name Accession Description Interval E-value
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-120 4.49e-48

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: 153.82  E-value: 4.49e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHS 120
Cdd:cd17535   81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 4-214 7.82e-46

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 151.33  E-value: 7.82e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEG-TKLITSSLPGvKVLMLT 82
Cdd:PRK10651   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETlDKLREKSLSG-RIVVFS 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLPPELT---AQMLNEwKREKQLKGINEiekpnelldLT 159
Cdd:PRK10651  88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTpvlAASLRA-NRATTERDVNQ---------LT 157

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 857324843 160 EREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVR 214
Cdd:PRK10651 158 PRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQ 212
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-216 7.68e-40

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: 133.09  E-value: 7.68e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLItsslpgvkvlm 80
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  81 lttfkdsaliaealeegasgyllkdmsadtivkavmtvhsggmvlppeltaqmlnewkrekqlkgineiekpnelldLTE 160
Cdd:COG2197   70 -----------------------------------------------------------------------------LTP 72

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 857324843 161 REIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYG 216
Cdd:COG2197   73 REREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLG 128
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-115 5.48e-25

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: 94.53  E-value: 5.48e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843    4 IIITDDQDIVREGLASLLqlrEELD-VIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLL---EKEGyVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|...
gi 857324843   83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAI 110
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 158-217 2.12e-22

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: 86.55  E-value: 2.12e-22
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843 158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYGV 217
Cdd:COG5905   13 LTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGL 72
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 155-211 3.90e-21

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 82.57  E-value: 3.90e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 857324843   155 LLDLTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIY 211
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 158-214 2.43e-16

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: 70.26  E-value: 2.43e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 857324843 158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVR 214
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
GerE pfam00196
Bacterial regulatory proteins, luxR family;
158-211 9.00e-15

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 66.07  E-value: 9.00e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 857324843  158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIY 211
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRM 56
PRK10100 PRK10100
transcriptional regulator CsgD;
158-208 1.70e-12

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 64.12  E-value: 1.70e-12
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 857324843 158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQA 208
Cdd:PRK10100 156 LTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQA 206
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 2-58 9.18e-11

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: 55.27  E-value: 9.18e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 857324843     2 IKIIITDDQDIVREGLASLLqlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMP 58
Cdd:smart00448   1 MRILVVDDDPLLRELLKALL--EKEGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 154-201 2.36e-03

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 37.33  E-value: 2.36e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 857324843  154 ELLDLTEREIEVLAELgYGLNNKEIAEKLYITEGTVKNHVSNIISKLA 201
Cdd:TIGR02937 109 EKLPEREREVLVLRYL-EGLSYKEIAEILGISVGTVKRRLKRARKKLR 155
 
Name Accession Description Interval E-value
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-120 4.49e-48

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: 153.82  E-value: 4.49e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHS 120
Cdd:cd17535   81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 4-214 7.82e-46

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 151.33  E-value: 7.82e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEG-TKLITSSLPGvKVLMLT 82
Cdd:PRK10651   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETlDKLREKSLSG-RIVVFS 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLPPELT---AQMLNEwKREKQLKGINEiekpnelldLT 159
Cdd:PRK10651  88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTpvlAASLRA-NRATTERDVNQ---------LT 157

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 857324843 160 EREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVR 214
Cdd:PRK10651 158 PRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQ 212
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-216 7.68e-40

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: 133.09  E-value: 7.68e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLItsslpgvkvlm 80
Cdd:COG2197    1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  81 lttfkdsaliaealeegasgyllkdmsadtivkavmtvhsggmvlppeltaqmlnewkrekqlkgineiekpnelldLTE 160
Cdd:COG2197   70 -----------------------------------------------------------------------------LTP 72

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 857324843 161 REIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYG 216
Cdd:COG2197   73 REREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLG 128
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
3-210 6.85e-35

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 123.04  E-value: 6.85e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:PRK10403   8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILT 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLppeltAQMLNEWKREKQLKGineiEKPNELLDLTERE 162
Cdd:PRK10403  88 VSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVF-----SERVNQYLREREMFG----AEEDPFSVLTERE 158

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 857324843 163 IEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAI 210
Cdd:PRK10403 159 LDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATI 206
PRK09483 PRK09483
response regulator; Provisional
 1-217 2.79e-31

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 114.05  E-value: 2.79e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLM 80
Cdd:PRK09483   1 MINVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIM 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLPPELTAQM-LNewkrekQLKGINEiekpNELLDLT 159
Cdd:PRK09483  81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMaLS------QIEPATE----NPFASLS 150

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 857324843 160 EREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYGV 217
Cdd:PRK09483 151 ERELQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGL 208
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 4-119 4.43e-31

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: 110.44  E-value: 4.43e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd19930    1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTT 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVH 119
Cdd:cd19930   81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVH 116
PRK15369 PRK15369
two component system response regulator;
2-217 2.19e-30

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 111.32  E-value: 2.19e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLML 81
Cdd:PRK15369   4 YKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILVL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  82 TTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLPPELTAQMLnewkrekqLKGINEIEKPNELLDLTER 161
Cdd:PRK15369  84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAI--------LALLNADDTNPPLLTPRER 155

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 857324843 162 EIEVLAELGYGlnNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYGV 217
Cdd:PRK15369 156 QILKLITEGYT--NRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGL 209
PRK10360 PRK10360
transcriptional regulator UhpA;
1-209 5.15e-30

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 110.07  E-value: 5.15e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEgtklITSSLP-GVKVL 79
Cdd:PRK10360   1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLE----LLSQLPkGMATI 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  80 MLTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLPPELtAQMLNEWKREKqlkgineiekpnelldLT 159
Cdd:PRK10360  77 MLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDI-AIKLASGRQDP----------------LT 139

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 857324843 160 EREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAA 209
Cdd:PRK10360 140 KRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELA 189
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 3-104 1.71e-29

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: 105.63  E-value: 1.71e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:COG4753    1 KVLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILS 80

                         90       100
                 ....*....|....*....|..
gi 857324843  83 TFKDSALIAEALEEGASGYLLK 104
Cdd:COG4753   81 GYSDFEYAQEAIKLGADDYLLK 102
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 4-115 7.67e-28

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: 102.03  E-value: 7.67e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQlREELD--VIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLML 81
Cdd:cd17536    1 VLIVDDEPLIREGLKKLID-WEELGfeVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIIL 79

                         90       100       110
                 ....*....|....*....|....*....|....
gi 857324843  82 TTFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd17536   80 SGYDDFEYAQKAIRLGVVDYLLKPVDEEELEEAL 113
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 2-118 1.01e-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: 96.58  E-value: 1.01e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLML 81
Cdd:cd17542    1 KKVLIVDDAAFMRMMLKDILT-KAGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMC 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 857324843  82 TTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTV 118
Cdd:cd17542   80 SAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-115 5.48e-25

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: 94.53  E-value: 5.48e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843    4 IIITDDQDIVREGLASLLqlrEELD-VIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLL---EKEGyVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|...
gi 857324843   83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAI 110
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 2-104 7.53e-25

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: 94.38  E-value: 7.53e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPgVKVLML 81
Cdd:cd17541    1 IRVLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERP-TPVVMV 79

                         90       100
                 ....*....|....*....|....*
gi 857324843  82 T--TFKDSALIAEALEEGASGYLLK 104
Cdd:cd17541   80 SslTEEGAEITLEALELGAVDFIAK 104
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-115 8.48e-24

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 91.95  E-value: 8.48e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLM 80
Cdd:COG4565    3 MIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDVIV 82

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:COG4565   83 ITAARDPETVREALRAGVVDYLIKPFTFERLREAL 117
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-115 4.78e-23

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 92.57  E-value: 4.78e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLM 80
Cdd:COG3279    1 MMKILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIF 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 857324843  81 LTTFKDSALiaEALEEGASGYLLKDMSADTIVKAV 115
Cdd:COG3279   81 TTAYDEYAL--EAFEVNAVDYLLKPIDEERLAKAL 113
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 1-115 7.86e-23

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: 89.14  E-value: 7.86e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI--TSSLPGVKV 78
Cdd:COG0784    5 GKRILVVDDNPDNRELLRRLLE-RLGYEVT-TAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIraLPRLPDIPI 82

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 857324843  79 LMLTTFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:COG0784   83 IALTAYADEEDRERALEAGADDYLTKPVDPEELLEAL 119
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
4-202 2.08e-22

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 90.71  E-value: 2.08e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:PRK09935   6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLSS 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLPPEltaqMLNEWKREKQLKGINEIekpnelLDLTEREI 163
Cdd:PRK09935  86 KSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSE----TLNYIKSNKCSTNSSTD------TVLSNREV 155

                        170       180       190
                 ....*....|....*....|....*....|....*....
gi 857324843 164 EVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAV 202
Cdd:PRK09935 156 TILRYLVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGL 194
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 158-217 2.12e-22

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: 86.55  E-value: 2.12e-22
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843 158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYGV 217
Cdd:COG5905   13 LTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGL 72
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 4-203 2.81e-22

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: 89.77  E-value: 2.81e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREeLDVIATArNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLIT---SSLPgvkVLM 80
Cdd:COG4566    2 VYIVDDDEAVRDSLAFLLESAG-LRVETFA-SAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAargSPLP---VIF 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHsggmvlppELTAQMLNEWKREKQLKgineiekpnELLD-LT 159
Cdd:COG4566   77 LTGHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRAL--------ARDRARRAERARRAELR---------ARLAsLT 139

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 857324843 160 EREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVR 203
Cdd:COG4566  140 PREREVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGAR 183
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 2-115 9.34e-22

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: 86.31  E-value: 9.34e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGvKVLML 81
Cdd:cd19932    1 VRVLIAEDEALIRMDLREMLE-EAGYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIA-PIVLL 78

                         90       100       110
                 ....*....|....*....|....*....|....
gi 857324843  82 TTFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd19932   79 TAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAI 112
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-203 1.19e-21

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: 88.47  E-value: 1.19e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLM 80
Cdd:COG0745    1 MPRILVVEDDPDIRELLADALE-REGYEVD-TAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIM 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTI---VKAVMTVHSGGMVLPPELtaqmLNEWKREKQLKGineiekpnELLD 157
Cdd:COG0745   79 LTARDDEEDRVRGLEAGADDYLTKPFDPEELlarIRALLRRRAAEVLRVGDL----LDLAAREVTRDG--------EPVE 146

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 857324843 158 LTEREIEVLAEL----GYGLNNKEIAEKL----YITEGTVKNHVSNIISKLAVR 203
Cdd:COG0745  147 LTPKEFRLLELLmrnpGRVVSREQLLEEVwgydYGDDRTVDVHISRLRKKLEDD 200
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 155-211 3.90e-21

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 82.57  E-value: 3.90e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 857324843   155 LLDLTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIY 211
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-118 1.46e-20

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: 84.96  E-value: 1.46e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI--TSSLPGVKV 78
Cdd:COG3706    1 PARILVVDDDPTNRKLLRRLLE-AAGYEVV-EAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLraDPRTADIPI 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 857324843  79 LMLTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTV 118
Cdd:COG3706   79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLV 118
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 8-104 1.73e-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: 82.28  E-value: 1.73e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   8 DDQDIVREGLASLLqlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTTFKDS 87
Cdd:cd00156    4 DDDPAIRELLKSLL--EREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKADE 81

                         90
                 ....*....|....*..
gi 857324843  88 ALIAEALEEGASGYLLK 104
Cdd:cd00156   82 EDAVRALELGADDYLVK 98
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-115 1.95e-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: 88.48  E-value: 1.95e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLM 80
Cdd:COG2204    2 MARILVVDDDPDIRRLLKELLE-RAGYEVE-TAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVIL 79

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:COG2204   80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAV 114
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-118 1.90e-19

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: 82.31  E-value: 1.90e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPgVKVLM 80
Cdd:COG3707    3 GLRVLVVDDEPLRRADLREGLR-EAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERP-APVIL 80

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTV 118
Cdd:COG3707   81 LTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALELA 118
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 4-115 6.03e-19

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: 78.93  E-value: 6.03e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd19931    1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                         90       100       110
                 ....*....|....*....|....*....|..
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd19931   81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEAL 112
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 3-118 2.39e-18

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: 80.21  E-value: 2.39e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI--TSSLPGVKVLM 80
Cdd:COG3437    8 TVLIVDDDPENLELLRQLLR-TLGYDVV-TAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLraDPSTRDIPVIF 85

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTV 118
Cdd:COG3437   86 LTALADPEDRERALEAGADDYLTKPFDPEELLARVRNA 123
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
3-111 2.52e-18

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 82.59  E-value: 2.52e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQLrEELDVIAtARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:PRK11361   6 RILIVDDEDNVRRMLSTAFAL-QGFETHC-ANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMT 83

                         90       100
                 ....*....|....*....|....*....
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTI 111
Cdd:PRK11361  84 AYAEVETAVEALRCGAFDYVIKPFDLDEL 112
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 4-119 2.63e-18

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: 77.19  E-value: 2.63e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd17532    1 ALIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVFVTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 857324843  84 FKDSALiaEALEEGASGYLLKDMSADTIVKAVMTVH 119
Cdd:cd17532   81 YDEYAV--EAFELNAVDYLLKPFSEERLAEALAKLR 114
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
2-98 9.11e-18

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 80.31  E-value: 9.11e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPgVKVLML 81
Cdd:PRK12555   1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRIMAERP-CPILIV 79

                         90
                 ....*....|....*....
gi 857324843  82 T--TFKDSALIAEALEEGA 98
Cdd:PRK12555  80 TslTERNASRVFEAMGAGA 98
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
1-104 7.76e-17

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 77.88  E-value: 7.76e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPgVKVLM 80
Cdd:PRK00742   3 KIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLNPDVITLDVEMPVMDGLDALEKIMRLRP-TPVVM 81

                         90       100
                 ....*....|....*....|....*.
gi 857324843  81 LTTF-KDSALIA-EALEEGASGYLLK 104
Cdd:PRK00742  82 VSSLtERGAEITlRALELGAVDFVTK 107
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 158-214 2.43e-16

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: 70.26  E-value: 2.43e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 857324843 158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVR 214
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 2-104 1.18e-15

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: 70.13  E-value: 1.18e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVS-NGVEGTKLITSSLPgVKVLM 80
Cdd:cd17534    1 KKILIVEDEAIIALDLKEILE-SLGYEVVGIADSGEEAIELAEENKPDLILMDINLKGDmDGIEAAREIREKFD-IPVIF 78

                         90       100
                 ....*....|....*....|....
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17534   79 LTAYSDEETLERAKETNPYGYLVK 102
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 2-104 2.15e-15

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: 69.17  E-value: 2.15e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSS--LPGVKVL 79
Cdd:cd17561    2 IKVLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLRRMrlEKRPKII 81

                         90       100
                 ....*....|....*....|....*
gi 857324843  80 MLTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17561   82 MLTAFGQEDITQRAVELGASYYILK 106
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
154-217 2.55e-15

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 71.33  E-value: 2.55e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 857324843 154 ELLDLTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYGV 217
Cdd:COG2771  124 RAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGL 187
GerE pfam00196
Bacterial regulatory proteins, luxR family;
158-211 9.00e-15

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 66.07  E-value: 9.00e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 857324843  158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIY 211
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRM 56
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 5-104 1.82e-14

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: 66.66  E-value: 1.82e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   5 IITDDQDIvREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTTF 84
Cdd:cd17574    2 VVEDDEEI-AELLSDYLE-KEGYEVD-TAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAK 78

                         90       100
                 ....*....|....*....|
gi 857324843  85 KDSALIAEALEEGASGYLLK 104
Cdd:cd17574   79 DEEEDKVLGLELGADDYITK 98
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 3-104 2.06e-14

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: 66.37  E-value: 2.06e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSS--LPGVKVLM 80
Cdd:cd17538    1 KILVVDDEPANRELLEALLS-AEGYEVL-TADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKEDpeTRHIPVIM 78

                         90       100
                 ....*....|....*....|....
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17538   79 ITALDDREDRIRGLEAGADDFLSK 102
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 4-115 2.83e-14

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: 66.34  E-value: 2.83e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI---TSSLPGVKVLM 80
Cdd:cd17546    1 VLVVDDNPVNRKVLKKLLE-KLGYEVD-VAENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIrelEGGGRRTPIIA 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd17546   79 LTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
PRK11697 PRK11697
two-component system response regulator BtsR;
1-104 2.53e-13

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 66.41  E-value: 2.53e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEgtkLIT----SSLPgv 76
Cdd:PRK11697   1 MIKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLE---LVGmldpEHMP-- 75

                         90       100
                 ....*....|....*....|....*...
gi 857324843  77 KVLMLTTFKDSALiaEALEEGASGYLLK 104
Cdd:PRK11697  76 YIVFVTAFDEYAI--KAFEEHAFDYLLK 101
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 3-137 5.28e-13

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: 64.55  E-value: 5.28e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQLREeLDViATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:COG4567    6 SLLLVDDDEAFARVLARALERRG-FEV-TTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDARIVVLT 83

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAVMtvHSGGMVLPPELTAQMLN--EW 137
Cdd:COG4567   84 GYASIATAVEAIKLGADDYLAKPADADDLLAALE--RAEGDAPAPPENPMSLDrlEW 138
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 2-104 7.50e-13

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: 62.65  E-value: 7.50e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLML 81
Cdd:cd19925    1 INVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVV 80

                         90       100
                 ....*....|....*....|...
gi 857324843  82 TTFKDSALIAEALEEGASGYLLK 104
Cdd:cd19925   81 TAANDVETVREALRLGVVDYLIK 103
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 3-104 1.22e-12

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: 62.07  E-value: 1.22e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQLREELDVIATArNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPG--VKVLM 80
Cdd:cd17551    2 RILIVDDNPTNLLLLEALLRSAGYLEVVSFT-DPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRALPGLedVPIVM 80

                         90       100
                 ....*....|....*....|....
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17551   81 ITADTDREVRLRALEAGATDFLTK 104
PRK10100 PRK10100
transcriptional regulator CsgD;
158-208 1.70e-12

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 64.12  E-value: 1.70e-12
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 857324843 158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQA 208
Cdd:PRK10100 156 LTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQA 206
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 4-104 1.95e-12

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: 61.63  E-value: 1.95e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLrEELDViATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd17627    1 ILVVDDDRAVRESLRRSLRF-EGYEV-ETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLTA 78

                         90       100
                 ....*....|....*....|.
gi 857324843  84 FKDSALIAEALEEGASGYLLK 104
Cdd:cd17627   79 RDSVSDRVAGLDAGADDYLVK 99
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
2-149 3.04e-12

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 65.05  E-value: 3.04e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDqDIVReglASLLQ--LREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVL 79
Cdd:PRK10365   6 IDILVVDD-DISH---CTILQalLRGWGYNVALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVL 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 857324843  80 MLTTFKDSALIAEALEEGASGYLLKDMSAD----TIVKAVMTVHSGGMVLPPELTAQ--MLNEWKREKQLkgINEI 149
Cdd:PRK10365  82 IMTAYSSVETAVEALKTGALDYLIKPLDFDnlqaTLEKALAHTHSIDAETPAVTASQfgMVGKSPAMQHL--LSEI 155
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 3-108 5.23e-12

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: 60.29  E-value: 5.23e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQLREeLDVIAtARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:cd17555    2 TILVIDDDEVVRESIAAYLEDSG-FQVLQ-AADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIVVS 79

                         90       100
                 ....*....|....*....|....*....
gi 857324843  83 TFKDSALIAEALEEGASGYLLK---DMSA 108
Cdd:cd17555   80 GAGVMSDAVEALRLGAWDYLTKpieDLAV 108
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 3-118 1.13e-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: 59.62  E-value: 1.13e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI--TSSLPGVKVLM 80
Cdd:cd17562    2 KILAVDDSASIRQMVSFTLR-GAGYEVV-EAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELrkLPAYKFTPILM 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTV 118
Cdd:cd17562   80 LTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 3-114 1.84e-11

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: 58.99  E-value: 1.84e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlREELDViATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:cd17563    2 SLLLVDDDEVFAERLARALE-RRGFEV-ETAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 857324843  83 TFkdsALIA---EALEEGASGYLLKDMSADTIVKA 114
Cdd:cd17563   80 GY---ASIAtavEAIKLGADDYLAKPADADEILAA 111
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
172-209 4.08e-11

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 59.72  E-value: 4.08e-11
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 857324843 172 GLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAA 209
Cdd:COG2909  137 GLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAV 174
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 8-120 6.28e-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: 57.81  E-value: 6.28e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   8 DDQDIVREGLASLlQLREELDViatARNGQEAF-------EKAKELEPDIVLMDIRMPVSNGVEGTKLI-----TSSLPg 75
Cdd:cd17557   10 GDAELIQEAFKEA-GVPNELHV---VRDGEEALdflrgegEYADAPRPDLILLDLNMPRMDGFEVLREIkadpdLRRIP- 84

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 857324843  76 vkVLMLTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHS 120
Cdd:cd17557   85 --VVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSLGE 127
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
5-200 9.08e-11

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 59.14  E-value: 9.08e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   5 IITDDQDIVREGLASLLQlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGT-KLITSSLPGVkVLMLTT 83
Cdd:PRK09958   4 IIIDDHPLAIAAIRNLLI-KNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLeTLRKRQYSGI-IIIVSA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLPPELTAQMLNewkrekqlkGINEIEKpneLLDLTEREI 163
Cdd:PRK09958  82 KNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSLNRFVGS---------LTSDQQK---LDSLSKQEI 149

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 857324843 164 EVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKL 200
Cdd:PRK09958 150 SVMRYILDGKDNNDIAEKMFISNKTVSTYKSRLMEKL 186
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 2-58 9.18e-11

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: 55.27  E-value: 9.18e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 857324843     2 IKIIITDDQDIVREGLASLLqlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMP 58
Cdd:smart00448   1 MRILVVDDDPLLRELLKALL--EKEGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 4-104 9.98e-11

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: 56.51  E-value: 9.98e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd17565    1 FYIVDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMISQ 80

                         90       100
                 ....*....|....*....|.
gi 857324843  84 FKDSALIAEALEEGASGYLLK 104
Cdd:cd17565   81 VSDKEMIGKAYQAGIEFFINK 101
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 4-115 1.04e-10

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: 57.11  E-value: 1.04e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLrEELDVIATArNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd17549    1 VLLVDDDADVREALQQTLEL-AGFRVRAFA-DAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELDPDLPVILITG 78

                         90       100       110
                 ....*....|....*....|....*....|..
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd17549   79 HGDVPMAVEAMRAGAYDFLEKPFDPERLLDVV 110
fixJ PRK09390
response regulator FixJ; Provisional
 6-200 1.70e-10

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 58.09  E-value: 1.70e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   6 ITDDQDIVREGLASLLqlrEELDVIATARNGQEAF-EKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTTF 84
Cdd:PRK09390   8 VVDDDEAMRDSLAFLL---DSAGFEVRLFESAQAFlDALPGLRFGCVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGH 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  85 KDSALIAEALEEGASGYLLKDMSADTIVKAVMTVhsggmvlppelTAQMLNEWKREKQlkgINEIEKpnELLDLTEREIE 164
Cdd:PRK09390  85 GDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERA-----------LAQAPEAAKSEAV---AADIRA--RIASLSERERQ 148

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 857324843 165 VLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKL 200
Cdd:PRK09390 149 VMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTKM 184
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 3-93 2.64e-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: 55.69  E-value: 2.64e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlrEELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:cd17554    2 KILVVDDEENIRELYKEELE--DEGYEVVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVIICT 79

                         90
                 ....*....|....*.
gi 857324843  83 ---TFKD--SALIAEA 93
Cdd:cd17554   80 aysEYKSdfSSWAADA 95
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 3-104 6.73e-10

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: 54.78  E-value: 6.73e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLAslLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSlPGVKVLMLT 82
Cdd:cd17626    2 RILVVDDDAALAEMIG--IVLRGEGFDPAFCGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVCRQIRAE-SGVPIVMLT 78

                         90       100
                 ....*....|....*....|..
gi 857324843  83 TFKDSALIAEALEEGASGYLLK 104
Cdd:cd17626   79 AKSDTVDVVLGLESGADDYVAK 100
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 4-115 1.23e-09

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: 54.04  E-value: 1.23e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQlrEELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd17550    1 ILIVDDEEDIRESLSGILE--DEGYEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMISG 78

                         90       100       110
                 ....*....|....*....|....*....|..
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd17550   79 HGTIETAVKATKLGAYDFIEKPLSLDRLLLTI 110
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 4-104 1.31e-09

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: 53.67  E-value: 1.31e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDqdiVREGLASLLQ-LREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI-----TSSLPgvk 77
Cdd:cd19920    1 ILIVDD---VPDNLRLLSElLRAAGYRVLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLkadpaTRHIP--- 74

                         90       100
                 ....*....|....*....|....*..
gi 857324843  78 VLMLTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd19920   75 VIFLTALTDTEDKVKGFELGAVDYITK 101
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 3-115 1.73e-09

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: 53.71  E-value: 1.73e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlrEELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:cd17553    2 KILIVDDQYGIRILLNEVFN--KEGYQTFQAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMT 79

                         90       100       110
                 ....*....|....*....|....*....|...
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd17553   80 AYGELDMIQESKELGALTHFAKPFDIDEIRDAV 112
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 2-112 2.30e-09

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: 53.50  E-value: 2.30e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQlreELDV--IATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSS--LPGVK 77
Cdd:cd19923    1 MKVLVVDDFSTMRRIIKNLLK---ELGFnnVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIRADgaLSHLP 77

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 857324843  78 VLMLTTFKDSALIAEALEEGASGYLLKDMSADTIV 112
Cdd:cd19923   78 VLMVTAEAKKENVIAAAQAGVNNYIVKPFTAATLK 112
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 3-115 2.52e-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: 53.31  E-value: 2.52e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREgLASLLQLREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI--TSSLPGVKVLM 80
Cdd:cd17548    1 KILIVEDNPLNMK-LARDLLESAGYEVL-EAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLkeDPATRDIPVIA 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd17548   79 LTAYAMKGDREKILEAGCDGYISKPIDTREFLETV 113
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 3-112 9.32e-09

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: 51.58  E-value: 9.32e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLAslLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:cd17615    1 RVLVVDDEPNITELLS--MALRYEGWDVETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLT 78

                         90       100       110
                 ....*....|....*....|....*....|..
gi 857324843  83 TfKDSAL--IAeALEEGASGYLLKDMSADTIV 112
Cdd:cd17615   79 A-KDSVEdrIA-GLTAGGDDYVTKPFSLEEVV 108
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 4-115 1.21e-08

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: 51.60  E-value: 1.21e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLqlREELDViATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd17596    3 ILVVDDEVRSLEALRRTL--EEDFDV-LTAASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVRERWPEVVRIIISG 79

                         90       100       110
                 ....*....|....*....|....*....|...
gi 857324843  84 FKDSALIAEALEE-GASGYLLKDMSADTIVKAV 115
Cdd:cd17596   80 YTDSEDIIAGINEaGIYQYLTKPWHPDQLLLTV 112
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 4-104 2.13e-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: 50.79  E-value: 2.13e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQlrEELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITS--SLPGVKVLML 81
Cdd:cd17598    1 ILIVEDSPTQAEQLKHILE--EQGYKVQVARNGREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKSdpDLKDIPVILL 78

                         90       100
                 ....*....|....*....|...
gi 857324843  82 TTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17598   79 TTLSDPRDVIRGLECGADNFITK 101
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 3-115 2.45e-08

phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; DNA-binding transcriptional regulator NtrC is also called nitrogen regulation protein NR(I) or nitrogen regulator I (NRI). It contains an N-terminal receiver (REC) domain, followed by a sigma-54 interaction domain, and a C-terminal helix-turn-helix DNA-binding domain. It is part of the two-component regulatory system NtrB/NtrC, which controls expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. DNA-binding response regulator NtrC is phosphorylated by NtrB; phosphorylation of the N-terminal REC domain activates the central sigma-54 interaction domain and leads to the transcriptional activation from promoters that require sigma(54)-containing RNA polymerase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381146 [Multi-domain]  Cd Length: 116  Bit Score: 50.35  E-value: 2.45e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlREELDVIATArNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:cd19919    2 TVWIVDDDSSIRWVLERALA-GAGLTVTSFE-NAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIMT 79

                         90       100       110
                 ....*....|....*....|....*....|...
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd19919   80 AHSDLDSAVSAYQGGAFEYLPKPFDIDEAVALV 112
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 4-104 2.97e-08

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: 49.84  E-value: 2.97e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREgLASLLQLREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd19926    1 VLVVDDEPDIRE-LLEITLGRMGLDVR-SARNVKEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQRLPQTPVAVITA 78

                         90       100
                 ....*....|....*....|.
gi 857324843  84 FKDSALIAEALEEGASGYLLK 104
Cdd:cd19926   79 YGSLDTAIEALKAGAFDFLTK 99
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 3-104 4.06e-08

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: 49.81  E-value: 4.06e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQLREELdvIATARNGQEAFEKAKELEP-DIVLMDIRMPVSNGVEGTKLITSSLPGVKVLML 81
Cdd:cd18160    1 TILLADDEPSVRKFIVTTLKKAGYA--VTEAESGAEALEKLQQGKDiDIVVTDIVMPEMDGIELAREARKIDPDVKILFI 78

                         90       100
                 ....*....|....*....|...
gi 857324843  82 TTFKDSALIAEALEEGASGYLLK 104
Cdd:cd18160   79 SGGAAAAPELLSDAVGDNATLKK 101
PRK15347 PRK15347
two component system sensor kinase;
2-158 4.98e-08

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 52.72  E-value: 4.98e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDD----QDIVREGLASLLQlreelDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSL---- 73
Cdd:PRK15347 691 LQILLVDDvetnRDIIGMMLVELGQ-----QVT-TAASGTEALELGRQHRFDLVLMDIRMPGLDGLETTQLWRDDPnnld 764

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  74 PGVKVLMLTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVmtvhsggmvlppELTAQMlnEWKREKQLKGINEIEKPn 153
Cdd:PRK15347 765 PDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARAL------------ELAAEY--QLLRGIELSPQDSSCSP- 829


                 ....*
gi 857324843 154 eLLDL 158
Cdd:PRK15347 830 -LLDT 833
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 4-115 7.47e-08

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: 49.34  E-value: 7.47e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQ----DIVReglaslLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI--TSSLPgvk 77
Cdd:cd17614    1 ILVVDDEkpisDILK------FNLTKEGYEVVTAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVrkTSNVP--- 71

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 857324843  78 VLMLTTfKDSAL-IAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd17614   72 IIMLTA-KDSEVdKVLGLELGADDYVTKPFSNRELLARV 109
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 5-116 9.74e-08

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


Pssm-ID: 381164 [Multi-domain]  Cd Length: 116  Bit Score: 48.81  E-value: 9.74e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   5 IITDDQDIVReglasLLQ--LREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSS--LPGVKVLM 80
Cdd:cd19937    2 VVDDEEDIVE-----LLKynLEKEGYEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRSDpkTSSIPIIM 76

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLKDMSADTI---VKAVM 116
Cdd:cd19937   77 LTAKGEEFDKVLGLELGADDYITKPFSPRELlarVKAVL 115
orf27 CHL00148
Ycf27; Reviewed
 3-111 9.99e-08

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 50.87  E-value: 9.99e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQLREeLDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSlPGVKVLMLT 82
Cdd:CHL00148   8 KILVVDDEAYIRKILETRLSIIG-YEVI-TASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIRKE-SDVPIIMLT 84

                         90       100
                 ....*....|....*....|....*....
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTI 111
Cdd:CHL00148  85 ALGDVSDRITGLELGADDYVVKPFSPKEL 113
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 4-104 1.28e-07

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: 48.46  E-value: 1.28e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVrEGLASLLQLrEELDVIAtARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSlPGVKVLMLTT 83
Cdd:cd17623    2 LLIDDDRELT-ELLTEYLEM-EGFNVRA-AHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKT-SQVPVLMLTA 77

                         90       100
                 ....*....|....*....|.
gi 857324843  84 FKDSALIAEALEEGASGYLLK 104
Cdd:cd17623   78 RGDDIDRILGLELGADDYLPK 98
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 5-64 1.31e-07

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: 48.22  E-value: 1.31e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   5 IITDDQDiVREGLASLLQLreELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVE 64
Cdd:cd17580    3 VVDDNED-AAEMLALLLEL--EGAEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYE 59
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 3-116 2.23e-07

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: 48.01  E-value: 2.23e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlREELDVIAtARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI-----TSSLPgvk 77
Cdd:cd17618    2 TILIVEDEPAIREMIAFNLE-RAGFDVVE-AEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLkrdemTRDIP--- 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 857324843  78 VLMLTTFKDSALIAEALEEGASGYLLKDMSADTIV---KAVM 116
Cdd:cd17618   77 IIMLTARGEEEDKVRGLEAGADDYITKPFSPRELVariKAVL 118
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 23-69 4.67e-07

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 49.85  E-value: 4.67e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 857324843  23 LREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI 69
Cdd:PRK11107 687 LEEQVEHVVLCDSGHQAVEQAKQRPFDLILMDIQMPGMDGIRACELI 733
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 2-202 1.45e-06

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 47.14  E-value: 1.45e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMP---VSNGVEGTKLITSSLPGVKV 78
Cdd:PRK10840   4 MNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMPgdkYGDGITLIKYIKRHFPSLSI 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  79 LMLTTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLpPELTAQMLnewkreKQLKGINEIEKPnelldL 158
Cdd:PRK10840  84 IVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFT-PESVSRLL------EKISAGGYGDKR-----L 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 857324843 159 TEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAV 202
Cdd:PRK10840 152 SPKESEVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGV 195
PRK10693 PRK10693
two-component system response regulator RssB;
33-104 1.62e-06

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 47.68  E-value: 1.62e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 857324843  33 ARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTTFKDSALIAEALEEGASGYLLK 104
Cdd:PRK10693   3 AANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLK 74
pleD PRK09581
response regulator PleD; Reviewed
 20-104 1.86e-06

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 47.59  E-value: 1.86e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  20 LLQLR---EELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI-----TSSLPgvkVLMLTTFKDSALIA 91
Cdd:PRK09581  17 LLEAKllaEYYTVL-TASSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLksdpaTTHIP---VVMVTALDDPEDRV 92

                         90
                 ....*....|...
gi 857324843  92 EALEEGASGYLLK 104
Cdd:PRK09581  93 RGLEAGADDFLTK 105
PRK10610 PRK10610
chemotaxis protein CheY;
2-111 2.01e-06

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 45.74  E-value: 2.01e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQlreEL--DVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITS--SLPGVK 77
Cdd:PRK10610   6 LKFLVVDDFSTMRRIVRNLLK---ELgfNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRAdgAMSALP 82

                         90       100       110
                 ....*....|....*....|....*....|....
gi 857324843  78 VLMLTTFKDSALIAEALEEGASGYLLKDMSADTI 111
Cdd:PRK10610  83 VLMVTAEAKKENIIAAAQAGASGYVVKPFTAATL 116
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 2-104 2.89e-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: 44.70  E-value: 2.89e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLML 81
Cdd:cd17569    1 PTILLVDDEPNILKALKRLLR-REGYEVL-TATSGEEALEILKQEPVDVVISDQRMPGMDGAELLKRVRERYPDTVRILL 78

                         90       100
                 ....*....|....*....|....
gi 857324843  82 TTFKDSALIAEALEEGA-SGYLLK 104
Cdd:cd17569   79 TGYADLDAAIEAINEGEiYRFLTK 102
REC_LytTR_AgrA-like cd17533
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; ...
 2-115 3.56e-06

phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; 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 AgrA-like group of LytTR/AlgR family response regulators are Staphylococcus aureus accessory gene regulator protein A (AgrA) and Streptococcus pneumoniae response regulator ComE, which are members of two-component regulatory systems. AgrA is a global regulator that controls the synthesis of virulence factors and other exoproteins. ComE is part of the ComD-ComE system that is part of a quorum-sensing signaling pathway that controls the development of competence, a physiological state required for genetic transformation. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381088 [Multi-domain]  Cd Length: 131  Bit Score: 44.92  E-value: 3.56e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDD----QDIVREGLASLLQLREELDVIATARNGQEAFEKAKELEP---DIVLMDIRMPVSNGVEGTKLITSSLP 74
Cdd:cd17533    1 MNIFILEDdkiqRVRLEEIIENILKIENIEYVIELTGKTEELLEKIKERGKngiYFLDIDIKMEEKNGLEVAQKIRKYDP 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 857324843  75 GVKVLMLTTFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd17533   81 YAIIIFVTTHSEFAPLTFEYKVAALDFILKPLKLEEFKKRI 121
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 2-104 4.71e-06

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: 44.43  E-value: 4.71e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQlREELDVIAtARNGQEAFEKAKElEPDI--VLMDIRMPVSNGVEGTKLITSSLP--GVK 77
Cdd:cd17544    1 IKVLVVDDSATSRNHLRALLR-RHNFQVLE-AANGQEALEVLEQ-HPDIklVITDYNMPEMDGFELVREIRKKYSrdQLA 77

                         90       100
                 ....*....|....*....|....*..
gi 857324843  78 VLMLTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17544   78 IIGISASGDNALSARFIKAGANDFLTK 104
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 2-64 5.72e-06

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: 44.06  E-value: 5.72e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 857324843   2 IKIIITDDQDIVREGLASLLQlrEELDV-IATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVE 64
Cdd:cd17593    1 MKVLICDDSSMARKQLARALP--ADWDVeITFAENGEEALEILREGRIDVLFLDLTMPVMDGYE 62
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
158-208 6.58e-06

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 46.48  E-value: 6.58e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 857324843 158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQA 208
Cdd:PRK04841 839 LTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQEA 889
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 3-64 8.29e-06

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: 43.69  E-value: 8.29e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 857324843   3 KIIITDDQDIVREGLASLLQLREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVE 64
Cdd:cd17552    3 RILVIDDEEDIREVVQACLEKLAGWEVL-TASSGQEGLEKAATEQPDAILLDVMMPDMDGLA 63
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 35-217 8.42e-06

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 45.06  E-value: 8.42e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  35 NGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI--TSSLPgvkVLMLTtfkdsALIAE-----ALEEGASGYLLKDMS 107
Cdd:PRK10710  42 HGDEVLPYVRQTPPDLILLDLMLPGTDGLTLCREIrrFSDIP---IVMVT-----AKIEEidrllGLEIGADDYICKPYS 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843 108 ADTIVKAVMTVhsggmvlppeltaqmLNEWKREKQLKGINE-----IEKP-------NELLDLTEREIEVL----AELGY 171
Cdd:PRK10710 114 PREVVARVKTI---------------LRRCKPQRELQQQDAespliIDESrfqaswrGKMLDLTPAEFRLLktlsHEPGK 178

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 857324843 172 GLNNKEIAEKLY-----ITEGTVKNHVSNIISKLAVRDRTQAAIYSVrYGV 217
Cdd:PRK10710 179 VFSREQLLNHLYddyrvVTDRTIDSHIKNLRRKLESLDAEQSFIRAV-YGV 228
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 4-104 8.48e-06

phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; Escherichia coli CusR is part of the CusS/CusR two-component system (TCS) that is involved in response to copper and silver. Other members of this subfamily include Escherichia coli PcoR, Pseudomonas syringae CopR, and Streptomyces coelicolor CutR, which are all transcriptional regulatory proteins and components of TCSs that regulate genes involved in copper resistance and/or metabolism. member of the subfamily is Escherichia coli HprR (hydrogen peroxide response regulator), previously called YdeW, which is part of the HprSR (or YedVW) TCS involved in stress response to hydrogen peroxide, as well as Cupriavidus metallidurans CzcR, which is part of the CzcS/CzcR TCS involved in the control of cobalt, zinc, and cadmium homeostasis. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381162 [Multi-domain]  Cd Length: 100  Bit Score: 43.20  E-value: 8.48e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDivregLASLLQ--LREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLML 81
Cdd:cd19935    2 LVVEDEKK-----LAEYLKkgLTEEGYAVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPVLML 76

                         90       100
                 ....*....|....*....|....
gi 857324843  82 TTfKDS-ALIAEALEEGASGYLLK 104
Cdd:cd19935   77 TA-RDSvEDRVKGLDLGADDYLVK 99
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 1-104 8.79e-06

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 45.01  E-value: 8.79e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQlREELDVIATARnGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGvKVLM 80
Cdd:PRK10701   1 MNKIVFVEDDAEVGSLIAAYLA-KHDIDVTVEPR-GDRAEATILREQPDLVLLDIMLPGKDGMTICRDLRPKWQG-PIVL 77

                         90       100
                 ....*....|....*....|....*.
gi 857324843  81 LTTFkDSAL--IAeALEEGASGYLLK 104
Cdd:PRK10701  78 LTSL-DSDMnhIL-ALEMGACDYILK 101
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 2-128 1.36e-05

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 44.53  E-value: 1.36e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQdiVREGLASLLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLML 81
Cdd:PRK09836   1 MKLLIVEDE--KKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGWDIVRMLRSANKGMPILLL 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 857324843  82 TTFKDSALIAEALEEGASGYLLKDMSADTIVKAVMTVHSGGMVLPPE 128
Cdd:PRK09836  79 TALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRRGAAVIIE 125
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 3-115 1.43e-05

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 45.25  E-value: 1.43e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlREELDViATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:PRK10923   5 IVWVVDDDSSIRWVLERALA-GAGLTC-TTFENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMT 82

                         90       100       110
                 ....*....|....*....|....*....|...
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:PRK10923  83 AHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALV 115
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 4-104 1.60e-05

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: 42.75  E-value: 1.60e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREglasllQLREELDV----IATARNGQEAFEKAKEL---------EPDIVLMDIRMPVSNGVEGTKLIT 70
Cdd:cd19924    1 ILVVDDSPTARK------QLRDLLKNlgfeIAEAVDGEEALNKLENLakegndlskELDLIITDIEMPKMDGYELTFELR 74

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 857324843  71 SS--LPGVKVLMLTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd19924   75 DDprLANIPVILNSSLSGEFSRARGKKVGADAYLAK 110
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 17-112 1.60e-05

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


Pssm-ID: 381114 [Multi-domain]  Cd Length: 121  Bit Score: 42.96  E-value: 1.60e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  17 LASLLQ--LREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTTFKDSALIAEAL 94
Cdd:cd17572   10 LAALYQeyLSDEGYKVTHVETGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVITAHGSVDIAVEAM 89

                         90
                 ....*....|....*...
gi 857324843  95 EEGASGYLLKDMSADTIV 112
Cdd:cd17572   90 RLGAYDFLEKPFDADRLR 107
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 5-109 2.11e-05

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


Pssm-ID: 381140 [Multi-domain]  Cd Length: 115  Bit Score: 42.21  E-value: 2.11e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   5 IITDDQDIvREGLASLLQlREELDViATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTtf 84
Cdd:cd17625    2 VVEDEKDL-SEAITKHLK-KEGYTV-DVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGIETPVLLLT-- 76

                         90       100       110
                 ....*....|....*....|....*....|
gi 857324843  85 kdsALIAEA-----LEEGASGYLLKDMSAD 109
Cdd:cd17625   77 ---ALDAVEdrvkgLDLGADDYLPKPFSLA 103
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 2-104 2.43e-05

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: 42.39  E-value: 2.43e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLASLLQLREELDVIATArNGQEAFEKAKELEPDIVLMDIRMPvsnGVEGTKLI--------TSSL 73
Cdd:cd17575    1 IMVLLVDDQAIIGEAVRRALADEEDIDFHYCS-DPTEAIEVASQIKPTVILQDLVMP---GVDGLTLVrffranpaTRDI 76

                         90       100       110
                 ....*....|....*....|....*....|.
gi 857324843  74 PgvkVLMLTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17575   77 P---IIVLSTKEEPEVKSEAFALGANDYLVK 104
PRK10430 PRK10430
two-component system response regulator DcuR;
1-143 5.13e-05

two-component system response regulator DcuR;


Pssm-ID: 182454 [Multi-domain]  Cd Length: 239  Bit Score: 42.79  E-value: 5.13e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQDIVREGLASLLQLREELDVIATARNGQEAFE--KAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKV 78
Cdd:PRK10430   1 MINVLIVDDDAMVAELNRRYVAQIPGFQCCGTASTLEQAKEiiFNSDTPIDLILLDIYMQQENGLDLLPVLHEAGCKSDV 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 857324843  79 LMLTTFKDSALIAEALEEGASGYLLKDMSADTIVKAvmtvhsggmvlppeltaqmLNEWKREKQL 143
Cdd:PRK10430  81 IVISSAADAATIKDSLHYGVVDYLIKPFQASRFEEA-------------------LTGWRQKKMA 126
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 4-115 6.22e-05

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: 41.04  E-value: 6.22e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLqlrEELDVIATARNGQEAFEKAKELE-PDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLT 82
Cdd:cd17537    3 VYVVDDDEAVRDSLAFLL---RSVGLAVKTFTSASAFLAAAPPDqPGCLVLDVRMPGMSGLELQDELLARGSNIPIIFIT 79

                         90       100       110
                 ....*....|....*....|....*....|...
gi 857324843  83 TFKDSALIAEALEEGASGYLLKDMSADTIVKAV 115
Cdd:cd17537   80 GHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAI 112
PRK15115 PRK15115
response regulator GlrR; Provisional
 16-115 1.03e-04

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 42.52  E-value: 1.03e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  16 GLASLL--QLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTTFKDSALIAEA 93
Cdd:PRK15115  16 GLLKLLgmRLTSEGYSVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIILTAHGSIPDAVAA 95

                         90       100
                 ....*....|....*....|..
gi 857324843  94 LEEGASGYLLKDMSADTIVKAV 115
Cdd:PRK15115  96 TQQGVFSFLTKPVDRDALYKAI 117
REC_TPR cd17589
phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...
 4-104 1.56e-04

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


Pssm-ID: 381123 [Multi-domain]  Cd Length: 115  Bit Score: 39.94  E-value: 1.56e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQlreELDV--IATARNGQEAFEKAKELEPDIVLMDIRMpvSNGVEG---------TKLITSS 72
Cdd:cd17589    1 FLIVDDQPTFRSMLKSMLR---SLGVtrIDTASSGEEALRMCENKTYDIVLCDYNL--GKGKNGqqlleelrhKKLISPS 75

                         90       100       110
                 ....*....|....*....|....*....|..
gi 857324843  73 lpgVKVLMLTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17589   76 ---TVFIMVTGESSRAMVLSALELEPDDYLLK 104
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 4-118 1.71e-04

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


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 39.67  E-value: 1.71e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREELDVIAtarNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSlPGVKVLMLTT 83
Cdd:cd19938    3 LIVEDEPKLAQLLIDYLRAAGYAPTLLA---HGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREIRRF-SDVPIIMVTA 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 857324843  84 FKDSALIAEALEEGASGYLLKDMSADTIVKAVMTV 118
Cdd:cd19938   79 RVEEIDRLLGLELGADDYICKPYSPREVVARVKAI 113
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 5-104 2.77e-04

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


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 38.68  E-value: 2.77e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   5 IITDDQDIVReglasLLQ--LREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI--TSSLPgvkVLM 80
Cdd:cd17620    3 VIEDEPQIRR-----FLRtaLEAHGYRVFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLreWSAVP---VIV 74

                         90       100
                 ....*....|....*....|....
gi 857324843  81 LTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17620   75 LSARDEESDKIAALDAGADDYLTK 98
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 3-104 2.77e-04

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: 39.28  E-value: 2.77e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQlREELDViATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGvKVLMLT 82
Cdd:cd17622    2 RILLVEDDPKLARLIADFLE-SHGFNV-VVEHRGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLRPKYQG-PILLLT 78

                         90       100
                 ....*....|....*....|..
gi 857324843  83 TFKDSALIAEALEEGASGYLLK 104
Cdd:cd17622   79 ALDSDIDHILGLELGADDYVVK 100
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
1-104 4.33e-04

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 40.17  E-value: 4.33e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   1 MIKIIITDDQdivREgLASLLQ--LREELDVIATARNGQEAFEKAKElEPDIVLMDIRMPVSNGVEGTKLI--TSSLPgv 76
Cdd:PRK10955   1 MNKILLVDDD---RE-LTSLLKelLEMEGFNVIVAHDGEQALDLLDD-SIDLLLLDVMMPKKNGIDTLKELrqTHQTP-- 73

                         90       100
                 ....*....|....*....|....*...
gi 857324843  77 kVLMLTTFKDSALIAEALEEGASGYLLK 104
Cdd:PRK10955  74 -VIMLTARGSELDRVLGLELGADDYLPK 100
PRK13719 PRK13719
conjugal transfer transcriptional regulator TraJ; Provisional
 158-217 4.74e-04

conjugal transfer transcriptional regulator TraJ; Provisional


Pssm-ID: 237479  Cd Length: 217  Bit Score: 39.71  E-value: 4.74e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843 158 LTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQAAIYSVRYGV 217
Cdd:PRK13719 144 VTKYQNDVFILYSFGFSHEYIAQLLNITVGSSKNKISEILKFFGISSRDELLIILHTSEM 203
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 4-104 5.41e-04

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: 38.52  E-value: 5.41e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLqlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSlPGVKVLMLTT 83
Cdd:cd17619    3 ILIVEDEPVTRATLKSYF--EQEGYDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELREQ-SEVGIILVTG 79

                         90       100
                 ....*....|....*....|.
gi 857324843  84 FKDSALIAEALEEGASGYLLK 104
Cdd:cd17619   80 RDDEVDRIVGLEIGADDYVTK 100
psREC_PRR cd17582
pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...
 4-104 6.78e-04

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


Pssm-ID: 381120 [Multi-domain]  Cd Length: 104  Bit Score: 37.76  E-value: 6.78e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLqlREELDVIATARNGQEAFEKAKELEP--DIVLMDIRMPVSNGVEGTKLITSS--LPGVKVL 79
Cdd:cd17582    1 VLLVENDDSTRQIVTALL--RKCSYEVTAASDGLQAWDVLEDEQNeiDLILTEVDLPVSSGFKLLSYIMRHkiCKNIPVI 78

                         90       100
                 ....*....|....*....|....*
gi 857324843  80 MLTTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17582   79 MMSSQDSVGVVFKCLSKGAADYLVK 103
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 4-104 7.06e-04

phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C (NtrC) and similar NtrC family response regulators; NtrC family proteins are transcriptional regulators that have REC, AAA+ ATPase/sigma-54 interaction, and DNA-binding output domains. This subfamily of NtrC proteins include NtrC, also called nitrogen regulator I (NRI), from Rhodobacter capsulatus, Azospirillum brasilense, and Azorhizobium caulinodans. NtrC is part of the NtrB/NtrC two-component system that controls the expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. The N-terminal REC domain of NtrC proteins regulate the activity of the protein and its phosphorylation controls the AAA+ domain oligomerization, while the central AAA+ domain participates in nucleotide binding, hydrolysis, oligomerization, and sigma54 interaction. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381155 [Multi-domain]  Cd Length: 100  Bit Score: 37.87  E-value: 7.06e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQlREELDVIATArNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLMLTT 83
Cdd:cd19928    1 ILVADDDRAIRTVLTQALG-RAGYEVRTTG-NAATLWRWVEEGEGDLVITDVVMPDENGLDLIPRIKKARPDLPIIVMSA 78

                         90       100
                 ....*....|....*....|.
gi 857324843  84 FKDSALIAEALEEGASGYLLK 104
Cdd:cd19928   79 QNTLMTAVKAAERGAFEYLPK 99
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 4-104 7.46e-04

phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is a member of the SenX3-RegX3 two-component system that is involved in phosphate-sensing signal transduction. Phosphorylated RegX3 functions as a transcriptional activator of phoA. It induces transcription in phosphate limiting environment and also controls expression of several critical metabolic enzymes in aerobic condition. RegX3 belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver 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: 381136 [Multi-domain]  Cd Length: 99  Bit Score: 37.56  E-value: 7.46e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLqlREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLI--TSSLPgvkVLML 81
Cdd:cd17621    1 VLVVEDEESFSDPLAYLL--RKEGFEVTVATDGPAALAEFDRAGADIVLLDLMLPGLSGTEVCRQLraRSNVP---VIMV 75

                         90       100
                 ....*....|....*....|...
gi 857324843  82 TTFKDSALIAEALEEGASGYLLK 104
Cdd:cd17621   76 TAKDSEIDKVVGLELGADDYVTK 98
PRK10816 PRK10816
two-component system response regulator PhoP;
2-169 7.96e-04

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 39.34  E-value: 7.96e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   2 IKIIITDDQDIVREGLAslLQLREELDVIATARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPGVKVLML 81
Cdd:PRK10816   1 MRVLVVEDNALLRHHLK--VQLQDAGHQVDAAEDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVL 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843  82 TTFKDSALIAEALEEGASGYLLKDMSADTIV---KAVMTVHSGgmvlppeLTAQMlnewkrekqlkgineIEKPNELLDL 158
Cdd:PRK10816  79 TARESWQDKVEVLSAGADDYVTKPFHIEEVMarmQALMRRNSG-------LASQV---------------ISLPPFQVDL 136

                        170
                 ....*....|.
gi 857324843 159 TEREIEVLAEL 169
Cdd:PRK10816 137 SRRELSINDEV 147
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 4-104 8.49e-04

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: 37.74  E-value: 8.49e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   4 IIITDDQDIVREGLASLLQLREeLDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSS--LPGVKVLML 81
Cdd:cd19927    1 ILLVDDDPGIRLAVKDYLEDQG-FTVI-AASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRKNadFDTIPVIFL 78

                         90       100
                 ....*....|....*....|...
gi 857324843  82 TTFKDSALIAEALEEGASGYLLK 104
Cdd:cd19927   79 TAKGMTSDRIKGYNAGCDGYLSK 101
PRK10188 PRK10188
transcriptional regulator SdiA;
128-217 8.59e-04

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 39.38  E-value: 8.59e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843 128 ELTAQMLNEWKREKQLKGINEIEKPNELlDLTEREIEVLAELGYGLNNKEIAEKLYITEGTVKNHVSNIISKLAVRDRTQ 207
Cdd:PRK10188 151 ELRLQLLVRESLMALMRLEDEMVMTPEM-NFSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQ 229

                         90
                 ....*....|
gi 857324843 208 AAIYSVRYGV 217
Cdd:PRK10188 230 IACYAAATGL 239
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 5-112 9.13e-04

phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family response regulators; Streptococcus agalactiae NsrR is a lantibiotic resistance-associated response regulator and is part of the nisin resistance operon. It is a member of the NsrRK two-component system (TCS) that is involved in the regulation of lantibiotic resistance genes such as a membrane-associated lipoprotein of LanI, and the nsr gene cluster which encodes for the resistance protein NSR and the ABC transporter NsrFP, both conferring resistance against nisin. This subfamily also includes Staphylococcus epidermidis GraR, part of the GraR/GraS TCS involved in resistance against cationic antimicrobial peptides, and Bacillus subtilis BceR, part of the BceS/BceR TCS involved in the regulation of bacitracin resistance. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381143 [Multi-domain]  Cd Length: 113  Bit Score: 37.65  E-value: 9.13e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   5 IITDDQDIVREgLASLLQlREELDVIaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTKLITSSLPgVKVLMLTTF 84
Cdd:cd18159    3 IVEDDETIASL-LKKHLE-KWGYEVV-LIEDFEDVLEEFLQFKPDLVLLDINLPYFDGFYWCREIRQISN-VPIIFISSR 78

                         90       100
                 ....*....|....*....|....*...
gi 857324843  85 KDSALIAEALEEGASGYLLKDMSADTIV 112
Cdd:cd18159   79 DDNMDQVMAINMGGDDYITKPFDLDVLL 106
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 154-201 2.36e-03

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 37.33  E-value: 2.36e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 857324843  154 ELLDLTEREIEVLAELgYGLNNKEIAEKLYITEGTVKNHVSNIISKLA 201
Cdd:TIGR02937 109 EKLPEREREVLVLRYL-EGLSYKEIAEILGISVGTVKRRLKRARKKLR 155
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 155-201 3.00e-03

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


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 37.28  E-value: 3.00e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 857324843 155 LLDLTEREIEVLaELGY--GLNNKEIAEKLYITEGTVKNHVSNIISKLA 201
Cdd:COG1595  125 LERLPPRQREVL-VLRYleGLSYAEIAEILGISEGTVKSRLSRARKKLR 172
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
3-116 3.31e-03

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 37.39  E-value: 3.31e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857324843   3 KIIITDDQDIVREGLASLLQLREELDViaTARNGQEAFEKAKELEPDIVLMDIRMPVSNGVEGTK-----LITSSLPgvk 77
Cdd:PRK10161   4 RILVVEDEAPIREMVCFVLEQNGFQPV--EAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKhlkreSMTRDIP--- 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 857324843  78 VLMLTTFKDSALIAEALEEGASGYLLKDMSADTIV---KAVM 116
Cdd:PRK10161  79 VVMLTARGEEEDRVRGLETGADDYITKPFSPKELVariKAVM 120
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 49-111 5.66e-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: 35.68  E-value: 5.66e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 857324843  49 DIVLMDIRMPVSNGVEGTKLITSSlPGVKVLMLTTFKDSALIAEALEEGASGYLLKDMSADTI 111
Cdd:cd17584   46 DLVITDVHMPDMDGFEFLELIRLE-MDLPVIMMSADGSTSTVMKGLAHGACDYLLKPVSIEDL 107
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 46-104 6.50e-03

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: 35.04  E-value: 6.50e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 857324843  46 LEPDIVLMDIRMPVSNGVEGTKLI--TSSLPGVKVLMLTtfKDSALIAEALEE--GASGYLLK 104
Cdd:cd17602   41 SKPDLILIDIDMPDLDGYELCSLLrkSSALKDTPIIMLT--GKDGLVDRIRAKmaGASGYLTK 101
Sigma70_r4 pfam04545
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 155-200 9.55e-03

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.


Pssm-ID: 461347 [Multi-domain]  Cd Length: 50  Bit Score: 33.17  E-value: 9.55e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 857324843  155 LLDLTEREIEVLAE-LGYGLNNKEIAEKLYITEGTVKNHVSNIISKL 200
Cdd:pfam04545   2 LASLPPRERQVLVLrYGEGLTLEEIGERLGISRERVRQIEKRALRKL 48
 
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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