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Conserved domains on  [gi|1686934460|gb|QDD03202|]
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response regulator transcription factor [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_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 4-118 2.49e-64

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: 194.03  E-value: 2.49e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD--TGCKIIILTT 81
Cdd:cd19930     1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREelPDTKVLIVTT 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMN 118
Cdd:cd19930    81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 127-199 1.17e-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: 1.17e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1686934460 127 LMEDIYSEANPLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITRSKEKGWFK 199
Cdd:COG5905     2 MPSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLS 74
 
Name Accession Description Interval E-value
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 4-118 2.49e-64

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: 194.03  E-value: 2.49e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD--TGCKIIILTT 81
Cdd:cd19930     1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREelPDTKVLIVTT 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMN 118
Cdd:cd19930    81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-197 4.69e-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: 4.69e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELkdtgckiiilt 80
Cdd:COG2197     1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  81 tftrpgyfqraikagvkgyllkdspseelasairsvmngkriyapelmediyseanpLTDREKEVLELVADGKNTKEIAQ 160
Cdd:COG2197    70 ---------------------------------------------------------LTPREREVLRLLAEGLSNKEIAE 92

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1686934460 161 ELSIKSGTVRNYISMILEKLEVKNRIEAITRSKEKGW 197
Cdd:COG2197    93 RLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGL 129
PRK10360 PRK10360
transcriptional regulator UhpA;
1-197 4.73e-36

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 124.70  E-value: 4.73e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKdTGCKIIILT 80
Cdd:PRK10360    1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLP-KGMATIMLS 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  81 TFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDIYS-EANPLTDREKEVLELVADGKNTKEIA 159
Cdd:PRK10360   80 VHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASgRQDPLTKRERQVAEKLAQGMAVKEIA 159

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1686934460 160 QELSIKSGTVRNYISMILEKLEVKNRIEaITRSKEKGW 197
Cdd:PRK10360  160 AELGLSPKTVHVHRANLMEKLGVSNDVE-LARRMFDGW 196
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-114 1.36e-24

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: 92.60  E-value: 1.36e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDdmEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTT 81
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEG--YVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRrrDPTTPVIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIR 114
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 127-199 1.17e-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: 1.17e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1686934460 127 LMEDIYSEANPLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITRSKEKGWFK 199
Cdd:COG5905     2 MPSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLS 74
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 135-191 2.81e-20

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 79.88  E-value: 2.81e-20
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460  135 ANPLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITR 191
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 ...
 138-194 1.54e-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: 1.54e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460 138 LTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITRSKE 194
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
GerE pfam00196
Bacterial regulatory proteins, luxR family;
137-189 2.82e-16

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 69.54  E-value: 2.82e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1686934460 137 PLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAI 189
Cdd:pfam00196   2 SLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELV 54
PRK10100 PRK10100
transcriptional regulator CsgD;
69-190 7.34e-09

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 53.34  E-value: 7.34e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  69 LKDTGCKIIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDI----------YSEANPL 138
Cdd:PRK10100   77 RKNNNIKILLLNTPEDYPYREIENWPHINGVFYAMEDQERVVNGLQGVLRGECYFTQKLASYLithsgnyrynSTESALL 156

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1686934460 139 TDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAIT 190
Cdd:PRK10100  157 THREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQAVS 208
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 2-58 4.42e-07

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: 45.25  E-value: 4.42e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460    2 ISIFIAEDQQMLLGALGSLLNLEDDMevVGKGTNGKDAVDFVKKHQPDVCIMDIEMP 58
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLEKEGYE--VDEATDGEEALELLKEEKPDLILLDIMMP 55
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 126-180 4.72e-06

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: 44.65  E-value: 4.72e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1686934460 126 ELMEDIYSEANPLTDREKEVLELVA-DGKNTKEIAQELSIKSGTVRNYISMILEKL 180
Cdd:TIGR02937  99 EEREALREALEKLPEREREVLVLRYlEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
 
Name Accession Description Interval E-value
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 4-118 2.49e-64

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: 194.03  E-value: 2.49e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD--TGCKIIILTT 81
Cdd:cd19930     1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREelPDTKVLIVTT 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMN 118
Cdd:cd19930    81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 4-118 1.05e-44

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: 144.19  E-value: 1.05e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTT 81
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRrrYPDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMN 118
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-197 4.69e-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: 4.69e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELkdtgckiiilt 80
Cdd:COG2197     1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  81 tftrpgyfqraikagvkgyllkdspseelasairsvmngkriyapelmediyseanpLTDREKEVLELVADGKNTKEIAQ 160
Cdd:COG2197    70 ---------------------------------------------------------LTPREREVLRLLAEGLSNKEIAE 92

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1686934460 161 ELSIKSGTVRNYISMILEKLEVKNRIEAITRSKEKGW 197
Cdd:COG2197    93 RLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGL 129
PRK10360 PRK10360
transcriptional regulator UhpA;
1-197 4.73e-36

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 124.70  E-value: 4.73e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKdTGCKIIILT 80
Cdd:PRK10360    1 MITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLP-KGMATIMLS 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  81 TFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDIYS-EANPLTDREKEVLELVADGKNTKEIA 159
Cdd:PRK10360   80 VHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASgRQDPLTKRERQVAEKLAQGMAVKEIA 159

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1686934460 160 QELSIKSGTVRNYISMILEKLEVKNRIEaITRSKEKGW 197
Cdd:PRK10360  160 AELGLSPKTVHVHRANLMEKLGVSNDVE-LARRMFDGW 196
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 3-188 6.55e-36

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 125.14  E-value: 6.55e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   3 SIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGC--KIIILT 80
Cdd:PRK10651    8 TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLsgRIVVFS 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  81 TFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDIYS-----------EANPLTDREKEVLELV 149
Cdd:PRK10651   88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAAslranratterDVNQLTPRERDILKLI 167

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1686934460 150 ADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEA 188
Cdd:PRK10651  168 AQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEA 206
PRK09483 PRK09483
response regulator; Provisional
 1-187 3.65e-31

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 112.89  E-value: 3.65e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEEL--KDTGCKIII 78
Cdd:PRK09483    1 MINVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKIlrYTPDVKIIM 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  79 LTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDI-YSEANP--------LTDREKEVLELV 149
Cdd:PRK09483   81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMaLSQIEPatenpfasLSERELQIMLMI 160

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1686934460 150 ADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIE 187
Cdd:PRK09483  161 TKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVE 198
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
4-188 7.74e-29

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 106.86  E-value: 7.74e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG--CKIIILTT 81
Cdd:PRK10403    9 VLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGvtAQIIILTV 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPE----LMEDIYSEANP-----LTDREKEVLELVADG 152
Cdd:PRK10403   89 SDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERvnqyLREREMFGAEEdpfsvLTERELDVLHELAQG 168

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 1686934460 153 KNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEA 188
Cdd:PRK10403  169 LSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAA 204
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 3-102 7.84e-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: 103.31  E-value: 7.84e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   3 SIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG--CKIIILT 80
Cdd:COG4753     1 KVLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDpdTKIIILS 80

                          90       100
                  ....*....|....*....|..
gi 1686934460  81 TFTRPGYFQRAIKAGVKGYLLK 102
Cdd:COG4753    81 GYSDFEYAQEAIKLGADDYLLK 102
PRK15369 PRK15369
two component system response regulator;
2-189 1.58e-27

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 103.23  E-value: 1.58e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD--TGCKIIIL 79
Cdd:PRK15369    4 YKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQrwPAMNILVL 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  80 TTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDIY------SEANP--LTDREKEVLELVAD 151
Cdd:PRK15369   84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAIlallnaDDTNPplLTPRERQILKLITE 163

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1686934460 152 GKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAI 189
Cdd:PRK15369  164 GYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELL 201
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 4-117 7.44e-27

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators; This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381091 [Multi-domain]  Cd Length: 121  Bit Score: 98.95  E-value: 7.44e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLED-DMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG--CKIIILT 80
Cdd:cd17536     1 VLIVDDEPLIREGLKKLIDWEElGFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYpdIKIIILS 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1686934460  81 tftrpGY--F---QRAIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd17536    81 -----GYddFeyaQKAIRLGVVDYLLKPVDEEELEEALEKAK 117
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-114 1.36e-24

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: 92.60  E-value: 1.36e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDdmEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTT 81
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEG--YVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRrrDPTTPVIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIR 114
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-114 2.42e-23

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 92.96  E-value: 2.42e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIII 78
Cdd:COG3279     1 MMKILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRelDPPPPIIF 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1686934460  79 LTTFTRpgYFQRAIKAGVKGYLLKDSPSEELASAIR 114
Cdd:COG3279    81 TTAYDE--YALEAFEVNAVDYLLKPIDEERLAKALE 114
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 127-199 1.17e-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: 1.17e-22
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1686934460 127 LMEDIYSEANPLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITRSKEKGWFK 199
Cdd:COG5905     2 MPSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLS 74
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 4-189 1.40e-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: 1.40e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDdMEVVGKGtngkDAVDFVKKHQPDVC---IMDIEMPGKTGLEAAEELKDTGCK--III 78
Cdd:COG4566     2 VYIVDDDEAVRDSLAFLLESAG-LRVETFA----SAEAFLAALDPDRPgclLLDVRMPGMSGLELQEELAARGSPlpVIF 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  79 LTtftrpGYFQ-----RAIKAGVKGYLLKDSPSEELASAIRSVM--NGKRIYAPELMEDIYSEANPLTDREKEVLELVAD 151
Cdd:COG4566    77 LT-----GHGDvpmavRAMKAGAVDFLEKPFDDQALLDAVRRALarDRARRAERARRAELRARLASLTPREREVLDLVVA 151

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1686934460 152 GKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAI 189
Cdd:COG4566   152 GLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELV 189
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 4-121 1.93e-22

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: 87.60  E-value: 1.93e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNlEDDMEVVGKgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT----GCKIIIL 79
Cdd:COG0784     8 ILVVDDNPDNRELLRRLLE-RLGYEVTTA-EDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRALprlpDIPIIAL 85

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1686934460  80 TTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKR 121
Cdd:COG0784    86 TAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLARAS 127
Spo0A COG5801
Stage 0 sporulation initiation regulator Spo0A (response regulator, REC-HTH domains) [Cell ...
 1-120 6.96e-22

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


Pssm-ID: 444503 [Multi-domain]  Cd Length: 264  Bit Score: 89.47  E-value: 6.96e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGC----KI 76
Cdd:COG5801     4 KIKVLIADDNREFCELLEEYLSSQPDMEVVGVAYNGLEALELIEEKKPDVVILDIIMPHLDGLGVLEKLREMNLekrpKV 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1686934460  77 IILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGK 120
Cdd:COG5801    84 IMLTAFGQEDITQRAVELGADYYILKPFDLDVLAERIRQLAGGK 127
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-131 5.35e-21

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 84.25  E-value: 5.35e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG--CKIII 78
Cdd:COG4565     3 MIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGpdVDVIV 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1686934460  79 LTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDI 131
Cdd:COG4565    83 ITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLLREDQEEDL 135
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 2-94 1.06e-20

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: 83.21  E-value: 1.06e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG-CKIIILT 80
Cdd:cd17541     1 IRVLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERpTPVVMVS 80

                          90
                  ....*....|....
gi 1686934460  81 TFTRPGyFQRAIKA 94
Cdd:cd17541    81 SLTEEG-AEITLEA 93
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 135-191 2.81e-20

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 79.88  E-value: 2.81e-20
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460  135 ANPLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITR 191
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-187 7.58e-20

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: 83.08  E-value: 7.58e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDdMEVVGkGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK--III 78
Cdd:COG0745     1 MPRILVVEDDPDIRELLADALEREG-YEVDT-AADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDipIIM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  79 LTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDIYSEAN---------PLTDREKEVLELV 149
Cdd:COG0745    79 LTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRRRAAEVLRVGDLLDLAARevtrdgepvELTPKEFRLLELL 158

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1686934460 150 ADGKNT----KEIAQEL----SIKSGTVRNYISMILEKLEvKNRIE 187
Cdd:COG0745   159 MRNPGRvvsrEQLLEEVwgydYGDDRTVDVHISRLRKKLE-DDLIE 203
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-114 4.09e-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: 80.77  E-value: 4.09e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLnLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEEL-KDTGCKIIIL 79
Cdd:COG3707     3 GLRVLVVDDEPLRRADLREGL-REAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQIsEERPAPVILL 81

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1686934460  80 TTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIR 114
Cdd:COG3707    82 TAYSDPELIERALEAGVSAYLVKPLDPEDLLPALE 116
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
3-193 4.81e-19

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 81.08  E-value: 4.81e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   3 SIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD--TGCKIIILT 80
Cdd:PRK09935    5 SVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQiqSTVKVLFLS 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  81 TFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDIYSEAN--------PLTDREKEVLELVADG 152
Cdd:PRK09935   85 SKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETLNYIKSNKCstnsstdtVLSNREVTILRYLVSG 164

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 1686934460 153 KNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITRSK 193
Cdd:PRK09935  165 LSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAK 205
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 4-117 1.02e-18

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: 77.77  E-value: 1.02e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG--CKIIILTT 81
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGvsARIVILTV 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd19931    81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAA 116
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-168 1.41e-18

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: 82.32  E-value: 1.41e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNlEDDMEVVGKGtNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG--CKIII 78
Cdd:COG2204     2 MARILVVDDDPDIRRLLKELLE-RAGYEVETAA-SGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDpdLPVIL 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  79 LTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDIYSEANPLTDREKEVLELVADGKNTKEI 158
Cdd:COG2204    80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRLRRENAEDSGLIGRSPAMQEVRRLIEKVAPSDATVLI 159

                         170
                  ....*....|
gi 1686934460 159 AQElsikSGT 168
Cdd:COG2204   160 TGE----SGT 165
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
134-198 1.98e-18

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 79.03  E-value: 1.98e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1686934460 134 EANPLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITRSKEKGWF 198
Cdd:COG2771   124 RAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGLI 188
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 6-102 5.03e-18

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response regulators (PRRs); Two-component systems (TCSs) involving a sensor and a response regulator are used by bacteria to adapt to changing environments. Processes regulated by two-component systems in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Response regulators (RRs) share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. Response regulators regulate transcription, post-transcription or post-translation, or have functions such as methylesterases, adenylate or diguanylate cyclase, c-di-GMP-specific phosphodiesterases, histidine kinases, serine/threonine protein kinases, and protein phosphatases, depending on their output domains. The function of some output domains are still unknown. TCSs are found in all three domains of life - bacteria, archaea, and eukaryotes, however, the presence and abundance of particular RRs vary between the lineages. Archaea encode very few RRs with DNA-binding output domains; most are stand-alone REC domains. Among eukaryotes, TCSs are found primarily in protozoa, fungi, algae, and green plants. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381085 [Multi-domain]  Cd Length: 99  Bit Score: 75.34  E-value: 5.03e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   6 IAEDQQMLLGALGSLLnlEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTTFT 83
Cdd:cd00156     2 IVDDDPAIRELLKSLL--EREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRelPPDIPVIVLTAKA 79

                          90
                  ....*....|....*....
gi 1686934460  84 RPGYFQRAIKAGVKGYLLK 102
Cdd:cd00156    80 DEEDAVRALELGADDYLVK 98
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 4-113 7.09e-18

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: 75.53  E-value: 7.09e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNlEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG-CKIIILTTF 82
Cdd:cd19932     3 VLIAEDEALIRMDLREMLE-EAGYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENiAPIVLLTAY 81

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1686934460  83 TRPGYFQRAIKAGVKGYLLKDSPSEELASAI 113
Cdd:cd19932    82 SQQDLVERAKEAGAMAYLVKPFSESDLIPAI 112
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-113 1.55e-17

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: 76.10  E-value: 1.55e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNlEDDMEVVGKgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK-DTGCK---I 76
Cdd:COG3706     1 PARILVVDDDPTNRKLLRRLLE-AAGYEVVEA-ADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRaDPRTAdipI 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1686934460  77 IILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAI 113
Cdd:COG3706    79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELLARV 115
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 3-143 3.39e-17

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: 76.36  E-value: 3.39e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   3 SIFIAEDQQMLLGALGSLLNlEDDMEVVgKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT----GCKIII 78
Cdd:COG3437     8 TVLIVDDDPENLELLRQLLR-TLGYDVV-TAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRADpstrDIPVIF 85

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1686934460  79 LTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKR-IYAPELMEDIYSEANPLTDREK 143
Cdd:COG3437    86 LTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRlQRELDDLVLYLKLAAPLHDIGK 151
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
6-190 9.92e-17

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 74.93  E-value: 9.92e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   6 IAEDQQMLLGALGSLLNlEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD---TGCkIIILTTF 82
Cdd:PRK09958    5 IIDDHPLAIAAIRNLLI-KNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKrqySGI-IIIVSAK 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  83 TRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRiYAPELME----DIYSEA---NPLTDREKEVLELVADGKNT 155
Cdd:PRK09958   83 NDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYC-YFPFSLNrfvgSLTSDQqklDSLSKQEISVMRYILDGKDN 161

                         170       180       190
                  ....*....|....*....|....*....|....*
gi 1686934460 156 KEIAQELSIKSGTVRNYISMILEKLEVKNRIEAIT 190
Cdd:PRK09958  162 NDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYT 196
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 138-194 1.54e-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: 1.54e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460 138 LTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITRSKE 194
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
GerE pfam00196
Bacterial regulatory proteins, luxR family;
137-189 2.82e-16

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 69.54  E-value: 2.82e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1686934460 137 PLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAI 189
Cdd:pfam00196   2 SLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELV 54
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 2-117 3.84e-16

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: 70.90  E-value: 3.84e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAEDQ-------QMLLGALGsllnleddMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGK-TGLEAAEELKD-T 72
Cdd:cd17534     1 KKILIVEDEaiialdlKEILESLG--------YEVVGIADSGEEAIELAEENKPDLILMDINLKGDmDGIEAAREIREkF 72

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1686934460  73 GCKIIILTTFTRPGYFQRAIKAGVKGYLLKdsP--SEELASAIRSVM 117
Cdd:cd17534    73 DIPVIFLTAYSDEETLERAKETNPYGYLVK--PfnERELKAAIELAL 117
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 2-102 4.87e-16

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: 70.33  E-value: 4.87e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGC----KII 77
Cdd:cd17561     2 IKVLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLRRMRLekrpKII 81

                          90       100
                  ....*....|....*....|....*
gi 1686934460  78 ILTTFTRPGYFQRAIKAGVKGYLLK 102
Cdd:cd17561    82 MLTAFGQEDITQRAVELGASYYILK 106
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 24-117 8.50e-16

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: 70.00  E-value: 8.50e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  24 EDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTTFTRPGYFQRAIKAGVKGYLL 101
Cdd:cd17542    22 KAGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKkiDPNAKVIMCSAMGQEEMVKEAIKAGAKDFIV 101

                          90
                  ....*....|....*.
gi 1686934460 102 KDSPSEELASAIRSVM 117
Cdd:cd17542   102 KPFQPERVLEAVEKVL 117
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 4-117 2.29e-15

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: 69.10  E-value: 2.29e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK-IIILTTf 82
Cdd:cd17532     1 ALIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPpLIVFVT- 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1686934460  83 trpGYFQRAIKA---GVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd17532    80 ---AYDEYAVEAfelNAVDYLLKPFSEERLAEALAKLR 114
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 4-102 8.10e-15

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: 67.49  E-value: 8.10e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAED---QQMLLGALgsLLNLEDDMEVVgkgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG-----CK 75
Cdd:cd17546     1 VLVVDDnpvNRKVLKKL--LEKLGYEVDVA---ENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIRELEgggrrTP 75

                          90       100
                  ....*....|....*....|....*..
gi 1686934460  76 IIILTTFTRPGYFQRAIKAGVKGYLLK 102
Cdd:cd17546    76 IIALTANALEEDREKCLEAGMDDYLSK 102
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
2-83 2.97e-14

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 69.91  E-value: 2.97e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEEL-KDTGCKIIILT 80
Cdd:PRK12555    1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRImAERPCPILIVT 80


                  ...
gi 1686934460  81 TFT 83
Cdd:PRK12555   81 SLT 83
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
1-131 2.99e-14

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 69.79  E-value: 2.99e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEEL-KDTGCKIIIL 79
Cdd:PRK00742    3 KIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLNPDVITLDVEMPVMDGLDALEKImRLRPTPVVMV 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1686934460  80 TTFTRPGYFQ--RAIKAGVKGYLLKdsPSEELASairsvmnGKRIYAPELMEDI 131
Cdd:PRK00742   83 SSLTERGAEItlRALELGAVDFVTK--PFLGISL-------GMDEYKEELAEKV 127
Spo0F COG5803
Stage 0 sporulation initiation response regulator Spo0F [Cell cycle control, cell division, ...
 35-118 3.64e-14

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


Pssm-ID: 444505 [Multi-domain]  Cd Length: 119  Bit Score: 65.97  E-value: 3.64e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  35 NGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASA 112
Cdd:COG5803    34 NGKEALEKVKELKPDLVLLDMKMPGMDGIEILKEIKeiDPDIPVIMMTAYGELDMVEEAKELGAKGYFTKPFDIDELREA 113


                  ....*.
gi 1686934460 113 IRSVMN 118
Cdd:COG5803   114 VNKLLK 119
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 4-115 1.32e-10

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: 56.39  E-value: 1.32e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDdMEVVgKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT----GCKIIIL 79
Cdd:cd17548     2 ILIVEDNPLNMKLARDLLESAG-YEVL-EAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKEDpatrDIPVIAL 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1686934460  80 TTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRS 115
Cdd:cd17548    80 TAYAMKGDREKILEAGCDGYISKPIDTREFLETVAK 115
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 2-186 2.89e-10

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 57.54  E-value: 2.89e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKT---GLEAAEELKD--TGCKI 76
Cdd:PRK10840    4 MNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMPGDKygdGITLIKYIKRhfPSLSI 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  77 IILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRiYAPE----LMEDIYSEA---NPLTDREKEVLELV 149
Cdd:PRK10840   84 IVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKK-FTPEsvsrLLEKISAGGygdKRLSPKESEVLRLF 162

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1686934460 150 ADGKNTKEIAQEL--SIKSGTVRNYISMIleKLEVKNRI 186
Cdd:PRK10840  163 AEGFLVTEIAKKLnrSIKTISSQKKSAMM--KLGVENDI 199
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
147-197 4.02e-10

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 56.64  E-value: 4.02e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1686934460 147 ELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITRSKEKGW 197
Cdd:COG2909   132 RLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGL 182
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 19-114 1.13e-09

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


Pssm-ID: 443624 [Multi-domain]  Cd Length: 177  Bit Score: 54.92  E-value: 1.13e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  19 SLLNLEDDMEV--------------VGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTTF 82
Cdd:COG4567     6 SLLLVDDDEAFarvlaralerrgfeVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRerDPDARIVVLTGY 85

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1686934460  83 TRPGYFQRAIKAGVKGYLLKDSPSEELASAIR 114
Cdd:COG4567    86 ASIATAVEAIKLGADDYLAKPADADDLLAALE 117
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
4-114 1.29e-09

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 56.78  E-value: 1.29e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDdMEVVGkGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTT 81
Cdd:PRK11361    7 ILIVDDEDNVRRMLSTAFALQG-FETHC-ANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRshETRTPVILMTA 84

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIR 114
Cdd:PRK11361   85 YAEVETAVEALRCGAFDYVIKPFDLDELNLIVQ 117
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 2-113 1.62e-09

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: 53.40  E-value: 1.62e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK--IIIL 79
Cdd:cd19925     1 INVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDvdVIVV 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1686934460  80 TTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAI 113
Cdd:cd19925    81 TAANDVETVREALRLGVVDYLIKPFTFERLRQRL 114
PRK11697 PRK11697
two-component system response regulator BtsR;
1-102 2.13e-09

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 55.24  E-value: 2.13e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEEL-KDTGCKIIIL 79
Cdd:PRK11697    1 MIKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLELVGMLdPEHMPYIVFV 80

                          90       100
                  ....*....|....*....|....*.
gi 1686934460  80 TTFTrpgyfQRAIKAGVKG---YLLK 102
Cdd:PRK11697   81 TAFD-----EYAIKAFEEHafdYLLK 101
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 3-116 2.51e-09

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


Pssm-ID: 381108 [Multi-domain]  Cd Length: 129  Bit Score: 53.19  E-value: 2.51e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   3 SIFIAED----QQMLLGALGSLlNLEDDMEVVGkgtNGKDAVDFVKKH-------QPDVCIMDIEMPGKTGLEAAEELK- 70
Cdd:cd17557     1 TILLVEDnpgdAELIQEAFKEA-GVPNELHVVR---DGEEALDFLRGEgeyadapRPDLILLDLNMPRMDGFEVLREIKa 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1686934460  71 DTGCK---IIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSV 116
Cdd:cd17557    77 DPDLRripVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSL 125
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 34-113 4.79e-09

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: 52.08  E-value: 4.79e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  34 TNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT----GCKIIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEEL 109
Cdd:cd17580    29 HSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRELpwlaNTPAIALTGYGQPEDRERALEAGFDAHLVKPVDPDEL 108


                  ....
gi 1686934460 110 ASAI 113
Cdd:cd17580   109 IELI 112
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 4-102 5.98e-09

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: 51.50  E-value: 5.98e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGC--KIIILTT 81
Cdd:cd17565     1 FYIVDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSngKFIMISQ 80

                          90       100
                  ....*....|....*....|.
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLK 102
Cdd:cd17565    81 VSDKEMIGKAYQAGIEFFINK 101
PRK10100 PRK10100
transcriptional regulator CsgD;
69-190 7.34e-09

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 53.34  E-value: 7.34e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  69 LKDTGCKIIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRIYAPELMEDI----------YSEANPL 138
Cdd:PRK10100   77 RKNNNIKILLLNTPEDYPYREIENWPHINGVFYAMEDQERVVNGLQGVLRGECYFTQKLASYLithsgnyrynSTESALL 156

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1686934460 139 TDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAIT 190
Cdd:PRK10100  157 THREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQAVS 208
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 23-116 1.89e-08

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: 50.30  E-value: 1.89e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  23 LEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEEL--KDTGCKIIILTTFtrPGYFQRAIKAGVKGYL 100
Cdd:cd17554    20 LEDEGYEVVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIreKKPDLPVIICTAY--SEYKSDFSSWAADAYV 97

                          90
                  ....*....|....*.
gi 1686934460 101 LKDSPSEELASAIRSV 116
Cdd:cd17554    98 VKSSDLTELKETIKRL 113
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 4-118 1.94e-08

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: 50.63  E-value: 1.94e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVvgKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTT 81
Cdd:cd17553     3 ILIVDDQYGIRILLNEVFNKEGYQTF--QAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKviDENIRVIIMTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMN 118
Cdd:cd17553    81 YGELDMIQESKELGALTHFAKPFDIDEIRDAVKKYLP 117
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 13-108 2.62e-08

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 52.93  E-value: 2.62e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  13 LLGALgsllnLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK----IIILTTFTRPGYF 88
Cdd:PRK11107  682 LIGAL-----LEEQVEHVVLCDSGHQAVEQAKQRPFDLILMDIQMPGMDGIRACELIRQLPHNqntpIIAVTAHAMAGER 756

                          90       100
                  ....*....|....*....|
gi 1686934460  89 QRAIKAGVKGYLLKdsPSEE 108
Cdd:PRK11107  757 ERLLSAGMDDYLAK--PIDE 774
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 4-102 3.13e-08

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: 49.75  E-value: 3.13e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDDMEVVGKgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK-DTGCK---IIIL 79
Cdd:cd17551     3 ILIVDDNPTNLLLLEALLRSAGYLEVVSF-TDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRaLPGLEdvpIVMI 81

                          90       100
                  ....*....|....*....|...
gi 1686934460  80 TTFTRPGYFQRAIKAGVKGYLLK 102
Cdd:cd17551    82 TADTDREVRLRALEAGATDFLTK 104
fixJ PRK09390
response regulator FixJ; Provisional
 38-184 3.64e-08

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 51.16  E-value: 3.64e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  38 DAVDFVKKHqPDV---CIM-DIEMPGKTGLEAAEELKDTGCK--IIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELAS 111
Cdd:PRK09390   35 SAQAFLDAL-PGLrfgCVVtDVRMPGIDGIELLRRLKARGSPlpVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIG 113

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1686934460 112 AIRSVMNGKRIYAPE--LMEDIYSEANPLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKN 184
Cdd:PRK09390  114 AIERALAQAPEAAKSeaVAADIRARIASLSERERQVMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTKMQAGS 188
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 6-80 5.62e-08

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: 48.56  E-value: 5.62e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460   6 IAEDQQMLLGALGSLLNLEDdMEVVgKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG--CKIIILT 80
Cdd:cd17574     2 VVEDDEEIAELLSDYLEKEG-YEVD-TAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGsdIPIIMLT 76
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 4-117 9.19e-08

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


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 48.82  E-value: 9.19e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSllNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK--IIILTt 81
Cdd:cd19934     1 LLLVEDDALLAAQLKE--QLSDAGYVVDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRAtpVLILT- 77

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1686934460  82 fTRPGYFQR--AIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd19934    78 -ARDSWQDKveGLDAGADDYLTKPFHIEELLARLRALI 114
PRK15347 PRK15347
two component system sensor kinase;
36-113 9.47e-08

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 51.18  E-value: 9.47e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  36 GKDAVDFVKKHQPDVCIMDIEMPGKTGLEAA------EELKDTGCKIIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEEL 109
Cdd:PRK15347  723 GTEALELGRQHRFDLVLMDIRMPGLDGLETTqlwrddPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKPVTLAQL 802


                  ....
gi 1686934460 110 ASAI 113
Cdd:PRK15347  803 ARAL 806
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 28-117 1.29e-07

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: 48.45  E-value: 1.29e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  28 EVVgKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT----GCKIIILTTFTRPGYFQRAIKAGVKGYLLKD 103
Cdd:cd17562    26 EVV-EAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKLpaykFTPILMLTTESSDEKKQEGKAAGATGWLVKP 104

                          90
                  ....*....|....
gi 1686934460 104 SPSEELASAIRSVM 117
Cdd:cd17562   105 FDPEQLLEVVKKVL 118
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 4-117 2.60e-07

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


Pssm-ID: 381137 [Multi-domain]  Cd Length: 116  Bit Score: 47.37  E-value: 2.60e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNlEDDMEVVgKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK-IIILTTF 82
Cdd:cd17622     3 ILLVEDDPKLARLIADFLE-SHGFNVV-VEHRGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLRPKYQGpILLLTAL 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1686934460  83 TRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd17622    81 DSDIDHILGLELGADDYVVKPVEPAVLLARLRALL 115
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 2-58 4.42e-07

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: 45.25  E-value: 4.42e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460    2 ISIFIAEDQQMLLGALGSLLNLEDDMevVGKGTNGKDAVDFVKKHQPDVCIMDIEMP 58
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLEKEGYE--VDEATDGEEALELLKEEKPDLILLDIMMP 55
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
125-194 4.87e-07

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 49.17  E-value: 4.87e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460 125 PELMEdiyseANPLTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAITRSKE 194
Cdd:PRK04841  831 PELIR-----TSPLTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQEAVQHAQD 895
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 4-115 5.11e-07

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


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 46.43  E-value: 5.11e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNlEDDMEVVGKgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK--IIILTt 81
Cdd:cd17537     3 VYVVDDDEAVRDSLAFLLR-SVGLAVKTF-TSASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNipIIFIT- 79

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1686934460  82 ftrpGYFQ-----RAIKAGVKGYLLKDSPSEELASAIRS 115
Cdd:cd17537    80 ----GHGDvpmavEAMKAGAVDFLEKPFRDQVLLDAIEQ 114
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 4-117 5.82e-07

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: 46.55  E-value: 5.82e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAED---QQMLLGALgsllnLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK-DTGCK---I 76
Cdd:cd17598     1 ILIVEDsptQAEQLKHI-----LEEQGYKVQVARNGREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKsDPDLKdipV 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1686934460  77 IILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd17598    76 ILLTTLSDPRDVIRGLECGADNFITKPYDEKYLLSRIKYIL 116
REC_LytTR_AgrA-like cd17533
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; ...
 2-115 7.52e-07

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: 46.46  E-value: 7.52e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAED---QQMLL----GALGSLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG- 73
Cdd:cd17533     1 MNIFILEDdkiQRVRLeeiiENILKIENIEYVIELTGKTEELLEKIKERGKNGIYFLDIDIKMEEKNGLEVAQKIRKYDp 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1686934460  74 -CKIIILTTFTR--PGYFQRaiKAGVKGYLLKDSPSEELASAIRS 115
Cdd:cd17533    81 yAIIIFVTTHSEfaPLTFEY--KVAALDFILKPLKLEEFKKRIEE 123
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 4-117 1.18e-06

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: 45.45  E-value: 1.18e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLED-DMEVVgkgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCKIIILTTF 82
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLRFEGyEVETA---VDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLT 77

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1686934460  83 TRPGYFQR--AIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd17627    78 ARDSVSDRvaGLDAGADDYLVKPFALEELLARVRALL 114
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 4-114 1.49e-06

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: 45.56  E-value: 1.49e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDdMEVVGKgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCKI-IILTTf 82
Cdd:cd17549     1 VLLVDDDADVREALQQTLELAG-FRVRAF-ADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELDPDLpVILIT- 77

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1686934460  83 trpGYFQ-----RAIKAGVKGYLLKDSPSEELASAIR 114
Cdd:cd17549    78 ---GHGDvpmavEAMRAGAYDFLEKPFDPERLLDVVR 111
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 34-112 1.50e-06

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: 45.13  E-value: 1.50e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  34 TNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT--GCKIIILTtftrpGYFQ-----RAIKAGVKGYLLKDSPS 106
Cdd:cd17563    31 HSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALqpDARIVVLT-----GYASiatavEAIKLGADDYLAKPADA 105


                  ....*.
gi 1686934460 107 EELASA 112
Cdd:cd17563   106 DEILAA 111
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 4-102 1.66e-06

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: 44.81  E-value: 1.66e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLnlEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT----GCKIIIL 79
Cdd:cd19920     1 ILIVDDVPDNLRLLSELL--RAAGYRVLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKADpatrHIPVIFL 78

                          90       100
                  ....*....|....*....|...
gi 1686934460  80 TTFTRPGYFQRAIKAGVKGYLLK 102
Cdd:cd19920    79 TALTDTEDKVKGFELGAVDYITK 101
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 103-180 3.57e-06

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: 45.37  E-value: 3.57e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1686934460 103 DSPSEELASAIRSVMNgkRIYAPELMEDIYSEANPLTDREKEVLELVA-DGKNTKEIAQELSIKSGTVRNYISMILEKL 180
Cdd:COG1595    95 DELAEELPDEAADPEE--ALEAEELLEALLAALERLPPRQREVLVLRYlEGLSYAEIAEILGISEGTVKSRLSRARKKL 171
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 126-180 4.72e-06

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: 44.65  E-value: 4.72e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1686934460 126 ELMEDIYSEANPLTDREKEVLELVA-DGKNTKEIAQELSIKSGTVRNYISMILEKL 180
Cdd:TIGR02937  99 EEREALREALEKLPEREREVLVLRYlEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 4-71 7.09e-06

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: 43.26  E-value: 7.09e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLEDdMEVVgKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD 71
Cdd:cd17538     2 ILVVDDEPANRELLEALLSAEG-YEVL-TADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKE 67
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 4-117 7.31e-06

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


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 43.61  E-value: 7.31e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLED-DMEVVGKGTNgkdAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT-GCKIIILTT 81
Cdd:cd17626     3 ILVVDDDAALAEMIGIVLRGEGfDPAFCGDGTQ---ALAAFREVRPDLVLLDLMLPGIDGIEVCRQIRAEsGVPIVMLTA 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1686934460  82 FTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd17626    80 KSDTVDVVLGLESGADDYVAKPFKPKELVARIRARL 115
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 138-180 1.18e-05

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


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 41.29  E-value: 1.18e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1686934460 138 LTDREKEVLEL-VADGKNTKEIAQELSIKSGTVRNYISMILEKL 180
Cdd:pfam08281  11 LPPRQREVFLLrYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
orf27 CHL00148
Ycf27; Reviewed
 34-117 2.98e-05

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 43.17  E-value: 2.98e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  34 TNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEEL-KDTGCKIIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASA 112
Cdd:CHL00148   37 SDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIrKESDVPIIMLTALGDVSDRITGLELGADDYVVKPFSPKELEAR 116


                  ....*
gi 1686934460 113 IRSVM 117
Cdd:CHL00148  117 IRSVL 121
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 4-122 3.16e-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: 41.80  E-value: 3.16e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLED-DMEVVGkgtNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG--CKIIILT 80
Cdd:cd17572     1 VLLVEDSPSLAALYQEYLSDEGyKVTHVE---TGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSlpTSVIVIT 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1686934460  81 TFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVMNGKRI 122
Cdd:cd17572    78 AHGSVDIAVEAMRLGAYDFLEKPFDADRLRVTVRNALKHRKL 119
PRK11173 PRK11173
two-component response regulator; Provisional
 4-71 3.88e-05

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 43.08  E-value: 3.88e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1686934460   4 IFIAEDQQMLLGALGSLLnlEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD 71
Cdd:PRK11173    6 ILIVEDELVTRNTLKSIF--EAEGYDVFEATDGAEMHQILSENDINLVIMDINLPGKNGLLLARELRE 71
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 23-110 5.10e-05

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: 41.03  E-value: 5.10e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  23 LEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCKI-IILTTFTrpGYFQRAIKA---GVKG 98
Cdd:cd17555    20 LEDSGFQVLQAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTpVIVVSGA--GVMSDAVEAlrlGAWD 97

                          90
                  ....*....|..
gi 1686934460  99 YLLKdsPSEELA 110
Cdd:cd17555    98 YLTK--PIEDLA 107
Sigma70_r4 cd06171
Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in ...
 138-180 6.14e-05

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


Pssm-ID: 100119 [Multi-domain]  Cd Length: 55  Bit Score: 39.40  E-value: 6.14e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1686934460 138 LTDREKEVLEL-VADGKNTKEIAQELSIKSGTVRNYISMILEKL 180
Cdd:cd06171    11 LPEREREVILLrFGEGLSYEEIAEILGISRSTVRQRLHRALKKL 54
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 3-117 8.99e-05

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


Pssm-ID: 381166 [Multi-domain]  Cd Length: 116  Bit Score: 40.43  E-value: 8.99e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   3 SIFIAEDQQMLLGALGSLLN---LEDDMEvvgkgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD-TGCKIII 78
Cdd:cd19939     1 RILIVEDELELARLTRDYLIkagLEVSVF-----TDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVREhSHVPILM 75

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1686934460  79 LTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd19939    76 LTARTEEMDRVLGLEMGADDYLCKPFSPRELLARVRALL 114
pleD PRK09581
response regulator PleD; Reviewed
 34-115 9.57e-05

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 42.20  E-value: 9.57e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  34 TNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD----TGCKIIILTTFTRPGYFQRAIKAGVKGYLLKdsPSEEL 109
Cdd:PRK09581   33 SSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKSdpatTHIPVVMVTALDDPEDRVRGLEAGADDFLTK--PINDV 110


                  ....*...
gi 1686934460 110 A--SAIRS 115
Cdd:PRK09581  111 AlfARVKS 118
PRK10693 PRK10693
two-component system response regulator RssB;
34-102 1.14e-04

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 41.90  E-value: 1.14e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1686934460  34 TNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK--IIILTTFTRPGYFQRAIKAGVKGYLLK 102
Cdd:PRK10693    4 ANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQtpVLVISATENMADIAKALRLGVQDVLLK 74
PRK08295 PRK08295
RNA polymerase sporulation sigma factor SigH;
138-190 1.18e-04

RNA polymerase sporulation sigma factor SigH;


Pssm-ID: 181361 [Multi-domain]  Cd Length: 208  Bit Score: 41.43  E-value: 1.18e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1686934460 138 LTDREKEVLELVADGKNTKEIAQELSIKSGTVRNYISMILEKLEVKNRIEAIT 190
Cdd:PRK08295  156 LSELEKEVLELYLDGKSYQEIAEELNRHVKSIDNALQRVKRKLEKYLENREIT 208
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 35-80 1.26e-04

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: 39.95  E-value: 1.26e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1686934460  35 NGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD--TGCKIIILT 80
Cdd:cd19919    32 NAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQrhPDLPVIIMT 79
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 4-117 1.38e-04

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


Pssm-ID: 381138 [Multi-domain]  Cd Length: 115  Bit Score: 39.98  E-value: 1.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGSLLNLED-DMEVVgkgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEEL-KDTGCKIIILTt 81
Cdd:cd17623     1 ILLIDDDRELTELLTEYLEMEGfNVRAA---HDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELrKTSQVPVLMLT- 76

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1686934460  82 fTRPGYFQRAI--KAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd17623    77 -ARGDDIDRILglELGADDYLPKPFNPRELVARIRAIL 113
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 2-116 1.51e-04

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


Pssm-ID: 381124 [Multi-domain]  Cd Length: 117  Bit Score: 39.83  E-value: 1.51e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAEDQQMLLGALGSLLNLEDDMEVVgKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG--CKIIIL 79
Cdd:cd17593     1 MKVLICDDSSMARKQLARALPADWDVEIT-FAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQleTKVIVV 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1686934460  80 TTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIRSV 116
Cdd:cd17593    80 SGDVQPEAKERVLELGALAFLKKPFDPEKLAQLLEEL 116
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 4-117 1.84e-04

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


Pssm-ID: 381139 [Multi-domain]  Cd Length: 115  Bit Score: 39.39  E-value: 1.84e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALgsLLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK--IIILTt 81
Cdd:cd17624     1 ILLVEDDALLGDGL--KTGLRKAGYAVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSlpVLILT- 77

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1686934460  82 fTRPGYFQR--AIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:cd17624    78 -ARDGVDDRvaGLDAGADDYLVKPFALEELLARLRALL 114
PRK10816 PRK10816
two-component system response regulator PhoP;
4-117 2.21e-04

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 40.49  E-value: 2.21e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGslLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCKIIILTTFT 83
Cdd:PRK10816    3 VLVVEDNALLRHHLK--VQLQDAGHQVDAAEDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1686934460  84 RPGYFQR--AIKAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:PRK10816   81 RESWQDKveVLSAGADDYVTKPFHIEEVMARMQALM 116
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 34-81 2.50e-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: 39.28  E-value: 2.50e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1686934460  34 TNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCKIIILTT 81
Cdd:cd19938    30 AHGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREIRRFSDVPIIMVT 77
Sigma70_r4 pfam04545
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 138-180 2.76e-04

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: 37.41  E-value: 2.76e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1686934460 138 LTDREKEVLELV-ADGKNTKEIAQELSIKSGTVRNYISMILEKL 180
Cdd:pfam04545   5 LPPRERQVLVLRyGEGLTLEEIGERLGISRERVRQIEKRALRKL 48
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
30-127 3.38e-04

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 40.78  E-value: 3.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  30 VGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKIIILTTFTRPGYFQRAIKAGVKGYLLKDSPSE 107
Cdd:PRK10365   32 VALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKalNPAIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFD 111

                          90       100
                  ....*....|....*....|
gi 1686934460 108 ELASAIRSVMNGKRIYAPEL 127
Cdd:PRK10365  112 NLQATLEKALAHTHSIDAET 131
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 23-73 3.95e-04

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: 38.63  E-value: 3.95e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1686934460  23 LEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTG 73
Cdd:cd17550    18 LEDEGYEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKY 68
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 34-81 5.11e-04

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 39.67  E-value: 5.11e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1686934460  34 TNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCKIIILTT 81
Cdd:PRK10710   41 SHGDEVLPYVRQTPPDLILLDLMLPGTDGLTLCREIRRFSDIPIVMVT 88
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 6-116 5.66e-04

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


Pssm-ID: 381140 [Multi-domain]  Cd Length: 115  Bit Score: 37.97  E-value: 5.66e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   6 IAEDQQMLLGALGSLLnlEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK--IIILTTft 83
Cdd:cd17625     2 VVEDEKDLSEAITKHL--KKEGYTVDVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGIEtpVLLLTA-- 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1686934460  84 rpgyfQRAIKAGVKG-------YLLKDSPSEELASAIRSV 116
Cdd:cd17625    78 -----LDAVEDRVKGldlgaddYLPKPFSLAELLARIRAL 112
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 34-102 7.93e-04

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: 37.70  E-value: 7.93e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1686934460  34 TNGKDAVDFVKKHQPDVCIMDIEMPGKTGLE------AAEELKDTgcKIIILTTFTRPGYFQRAIKAGVKGYLLK 102
Cdd:cd19923    32 EDGVDALEKLKAGGFDFVITDWNMPNMDGLEllktirADGALSHL--PVLMVTAEAKKENVIAAAQAGVNNYIVK 104
REC_PFxFATGY cd17586
phosphoacceptor receiver (REC) domain of PFxFATGY motif single-domain (stand-alone) response ...
 4-80 8.49e-04

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


Pssm-ID: 381122 [Multi-domain]  Cd Length: 111  Bit Score: 37.45  E-value: 8.49e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460   4 IFIAEDQQMLLGALGSLLNlEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCKIIILT 80
Cdd:cd17586     1 VLVLEDEPLIAMNLEDALE-DLGGKEVVTAATCAEALRSLADGPIDIAILDVNLGGETSIPVADALKRRAIPFIFAT 76
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 2-115 8.58e-04

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


Pssm-ID: 381113 [Multi-domain]  Cd Length: 118  Bit Score: 37.77  E-value: 8.58e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   2 ISIFIAEDQQMLLGALGSLLNLEDdMEVVgKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLE----AAEELKDTgckI- 76
Cdd:cd17569     1 PTILLVDDEPNILKALKRLLRREG-YEVL-TATSGEEALEILKQEPVDVVISDQRMPGMDGAEllkrVRERYPDT---Vr 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1686934460  77 IILTTFTRPGYFQRAI-KAGVKGYLLKDSPSEELASAIRS 115
Cdd:cd17569    76 ILLTGYADLDAAIEAInEGEIYRFLTKPWDDEELKETIRQ 115
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 10-102 1.02e-03

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


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 37.36  E-value: 1.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  10 QQMLLGALG-SLLNLEDDMEVVGKGTNGKDAVDFVKKHQpDVCIMDIEMPGKTGLEAAEELKDT----GCKIIILTTFTR 84
Cdd:cd19924    14 LRDLLKNLGfEIAEAVDGEEALNKLENLAKEGNDLSKEL-DLIITDIEMPKMDGYELTFELRDDprlaNIPVILNSSLSG 92

                          90
                  ....*....|....*...
gi 1686934460  85 PGYFQRAIKAGVKGYLLK 102
Cdd:cd19924    93 EFSRARGKKVGADAYLAK 110
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 30-117 1.93e-03

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: 36.56  E-value: 1.93e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  30 VGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCKIIILTTFTRPGYFQR--AIKAGVKGYLLKDSPSE 107
Cdd:cd17615    26 VETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLTAKDSVEDRiaGLTAGGDDYVTKPFSLE 105

                          90
                  ....*....|
gi 1686934460 108 ELASAIRSVM 117
Cdd:cd17615   106 EVVARLRALL 115
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 4-102 2.36e-03

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


Pssm-ID: 381154 [Multi-domain]  Cd Length: 102  Bit Score: 36.20  E-value: 2.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   4 IFIAEDQQMLLGALGslLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELK--DTGCKI--IIL 79
Cdd:cd19927     1 ILLVDDDPGIRLAVK--DYLEDQGFTVIAASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRknADFDTIpvIFL 78

                          90       100
                  ....*....|....*....|....*.
gi 1686934460  80 TTftrPGYFQRAIK---AGVKGYLLK 102
Cdd:cd19927    79 TA---KGMTSDRIKgynAGCDGYLSK 101
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 34-118 2.87e-03

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: 36.38  E-value: 2.87e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  34 TNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT----GCKIIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEEL 109
Cdd:cd17552    33 SSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQANpetqSIPVILLTAKAQPSDRQRFASLGVAGVIAKPFDPLTL 112


                  ....*....
gi 1686934460 110 ASAIRSVMN 118
Cdd:cd17552   113 AEQIAKLLG 121
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 4-81 3.13e-03

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


Pssm-ID: 381130 [Multi-domain]  Cd Length: 115  Bit Score: 36.25  E-value: 3.13e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1686934460   4 IFIAEDQQMLLGALGslLNLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCKIIILTT 81
Cdd:cd17614     1 ILVVDDEKPISDILK--FNLTKEGYEVVTAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVRKTSNVPIIMLT 76
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
1-117 3.74e-03

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 37.09  E-value: 3.74e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   1 MISIFIAEDQQMLLGALGSLLNLEDDMEVVGkgTNGKDAVDFVKKhQPDVCIMDIEMPGKTGLEAAEELKDTGCKIIILT 80
Cdd:PRK10955    1 MNKILLVDDDRELTSLLKELLEMEGFNVIVA--HDGEQALDLLDD-SIDLLLLDVMMPKKNGIDTLKELRQTHQTPVIML 77

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1686934460  81 TfTRPGYFQRAI--KAGVKGYLLKDSPSEELASAIRSVM 117
Cdd:PRK10955   78 T-ARGSELDRVLglELGADDYLPKPFNDRELVARIRAIL 115
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 26-114 4.15e-03

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 36.92  E-value: 4.15e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  26 DMEVVGKgTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKD--TGcKIIILTTFTRPGYFQRAIKAGVKGYLLKD 103
Cdd:PRK10701   25 DIDVTVE-PRGDRAEATILREQPDLVLLDIMLPGKDGMTICRDLRPkwQG-PIVLLTSLDSDMNHILALEMGACDYILKT 102

                          90
                  ....*....|.
gi 1686934460 104 SPSEELASAIR 114
Cdd:PRK10701  103 TPPAVLLARLR 113
COG1356 COG1356
Transcriptional regulator [Transcription];
138-194 4.31e-03

Transcriptional regulator [Transcription];


Pssm-ID: 440967 [Multi-domain]  Cd Length: 139  Bit Score: 35.98  E-value: 4.31e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460 138 LTDREKEVLELVADGKNTKEIAQELsiksGTVRNYISMIlEKLEVKNrieaITRSKE 194
Cdd:COG1356     9 LTRRQAEVLALRERGLTQQEIADIL----GTSRANVSSI-EKSAREN----IEKARE 56
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
39-131 4.32e-03

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 37.01  E-value: 4.32e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460  39 AVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDTGCK----IIILTTFTRPGYFQRAIKAGVKGYLLKDSPSEELASAIR 114
Cdd:PRK10161   38 AVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKRESMTrdipVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIK 117

                          90
                  ....*....|....*..
gi 1686934460 115 SVMngKRIyAPELMEDI 131
Cdd:PRK10161  118 AVM--RRI-SPMAVEEV 131
PRK06930 PRK06930
positive control sigma-like factor; Validated
 128-192 4.63e-03

positive control sigma-like factor; Validated


Pssm-ID: 180757 [Multi-domain]  Cd Length: 170  Bit Score: 36.25  E-value: 4.63e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1686934460 128 MEDIYSEanpLTDREKEVLEL-VADGKNTKEIAQELSIKSGTVRNYISMILEKleVKNRIEAITRS 192
Cdd:PRK06930  108 IEDALSV---LTEREKEVYLMhRGYGLSYSEIADYLNIKKSTVQSMIERAEKK--IARQINESLFC 168
PRK10188 PRK10188
transcriptional regulator SdiA;
138-169 5.27e-03

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 36.69  E-value: 5.27e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1686934460 138 LTDREKEVLELVADGKNTKEIAQELSIKSGTV 169
Cdd:PRK10188  180 FSKREKEILKWTAEGKTSAEIAMILSISENTV 211
tfx PRK03975
putative transcriptional regulator; Provisional
 138-179 5.58e-03

putative transcriptional regulator; Provisional


Pssm-ID: 179690 [Multi-domain]  Cd Length: 141  Bit Score: 35.64  E-value: 5.58e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1686934460 138 LTDREKEVLELVADGKNTKEIAQELsiksGTVRNYISMIlEK 179
Cdd:PRK03975    7 LTERQIEVLRLRERGLTQQEIADIL----GTSRANVSSI-EK 43
REC_PhyR cd17540
phosphoacceptor receiver (REC) domain of response regulator PhyR and similar proteins; PhyR is ...
 28-82 6.05e-03

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


Pssm-ID: 381095 [Multi-domain]  Cd Length: 117  Bit Score: 35.30  E-value: 6.05e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1686934460  28 EVVGKGTNGKDAVDFVKKHQPDVCIMDIEMP-GKTGLEAAEE-LKDTGCKIIILTTF 82
Cdd:cd17540    26 QVVGIARTRDEAVALARRERPDLILADIQLAdGSSGIDAVNEiLTTHDVPVIFVTAY 82
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 22-80 6.27e-03

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


Pssm-ID: 381164 [Multi-domain]  Cd Length: 116  Bit Score: 35.33  E-value: 6.27e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1686934460  22 NLEDDMEVVGKGTNGKDAVDFVKKHQPDVCIMDIEMPGKTGLEAAEELKDT----GCKIIILT 80
Cdd:cd19937    16 NLEKEGYEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRSDpktsSIPIIMLT 78
PRK09191 PRK09191
two-component response regulator; Provisional
 5-85 6.90e-03

two-component response regulator; Provisional


Pssm-ID: 236402 [Multi-domain]  Cd Length: 261  Bit Score: 36.36  E-value: 6.90e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1686934460   5 FIAEDQQMLLGALGSllnleddmEVVGKGTNGKDAVDFVKKHQPDVCIMDIEM-PGKTGLEAAEElkdtgckiiILTTFT 83
Cdd:PRK09191  148 IIAMDLEQLVESLGH--------RVTGIARTRAEAVALAKKTRPGLILADIQLaDGSSGIDAVND---------ILKTFD 210


                  ..
gi 1686934460  84 RP 85
Cdd:PRK09191  211 VP 212
 
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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