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Conserved domains on  [gi|1482993591|gb|RJP62271|]
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MAG: DNA-binding response regulator [Candidatus Auribacter fodinae]

Protein Classification

response regulator transcription factor( domain architecture ID 11520392)

response regulator transcription factor with a signal receiver (REC) domain and an AraC family helix-turn-helix (HTH) domain that may be part of a two-component regulatory system

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AtoC super family cl34427
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-118 7.07e-33

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];


The actual alignment was detected with superfamily member COG2204:

Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 123.15  E-value: 7.07e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPFTILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIII 78
Cdd:COG2204     1 SMARILVVDDDPDIRRLLKELLERagYEVETAASGEEALALLRE-EPPDLVLLDLRMPGMDGLELLRELRALDPDLPVIL 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:COG2204    80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALE 119
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
150-232 4.54e-27

helix_turn_helix, arabinose operon control protein;


:

Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 4.54e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  150 VSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPT 229
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 1482993591  230 EYR 232
Cdd:smart00342  82 EYR 84
 
Name Accession Description Interval E-value
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-118 7.07e-33

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: 123.15  E-value: 7.07e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPFTILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIII 78
Cdd:COG2204     1 SMARILVVDDDPDIRRLLKELLERagYEVETAASGEEALALLRE-EPPDLVLLDLRMPGMDGLELLRELRALDPDLPVIL 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:COG2204    80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALE 119
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 6-103 3.69e-28

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: 102.69  E-value: 3.69e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   6 LLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHS 83
Cdd:cd00156     1 LIVDDDPAIRELLKSLLERegYEVDTAADGEEALELLREER-PDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKA 79

                          90       100
                  ....*....|....*....|
gi 1482993591  84 SKEVAIDALRGHADDYMEKP 103
Cdd:cd00156    80 DEEDAVRALELGADDYLVKP 99
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-114 9.89e-28

Response regulator receiver domain; This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain.


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 102.23  E-value: 9.89e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKegYVVAEADDGKEALELLKE-ERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAH 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQ 114
Cdd:pfam00072  80 GDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
150-232 4.54e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 4.54e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  150 VSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPT 229
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 1482993591  230 EYR 232
Cdd:smart00342  82 EYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
155-233 1.57e-25

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 95.35  E-value: 1.57e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 155 VAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLL-KATDYNISQVADKLGYENPESFIRGFKKVTSLTPTEYRK 233
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 141-234 4.29e-20

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 87.14  E-value: 4.29e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 141 YIERNSQKMVSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGF 220
Cdd:COG4977   218 WMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAF 297

                          90
                  ....*....|....
gi 1482993591 221 KKVTSLTPTEYRKT 234
Cdd:COG4977   298 RRRFGVSPSAYRRR 311
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
141-233 1.68e-16

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 76.55  E-value: 1.68e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 141 YIERNSQKMVSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGF 220
Cdd:PRK10572  191 YISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVF 270

                          90
                  ....*....|...
gi 1482993591 221 KKVTSLTPTEYRK 233
Cdd:PRK10572  271 KKCTGASPSEFRA 283
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
4-162 3.17e-15

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 74.11  E-value: 3.17e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFR--YYLNDYIIIEASYGRDALNILKKPHLiDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:PRK11361    6 RILIVDDEDNVRRMLStaFALQGFETHCANNGRTALHLFADIHP-DVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTA 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENKIFGDE--SLgndvpgKVELAKSY----IERNSQKMVSLKEV 155
Cdd:PRK11361   85 YAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQLQSMKKEirHL------HQALSTSWqwghILTNSPAMMDICKD 158


                  ....*..
gi 1482993591 156 AQALCLS 162
Cdd:PRK11361  159 TAKIALS 165
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 5-115 5.58e-12

PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]


Pssm-ID: 274348 [Multi-domain]  Cd Length: 445  Bit Score: 64.77  E-value: 5.58e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLNDYIIIEASYGRDALNILKKpHLIDLIVLDQMLP-DV----RGTELLHQMKQLAPETSIIIL 79
Cdd:TIGR02915   1 LLIVEDDLGLQKQLKWSFADYELAVAADRESAIALVRR-HEPAVVTLDLGLPpDAdgasEGLAALQQILAIAPDTKVIVI 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQK 115
Cdd:TIGR02915  80 TGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDR 115
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 4-56 7.21e-09

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


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 50.64  E-value: 7.21e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1482993591    4 TILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLP 56
Cdd:smart00448   2 RILVVDDDPLLRELLKALLEKegYEVDEATDGEEALELLKE-EKPDLILLDIMMP 55
 
Name Accession Description Interval E-value
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-118 7.07e-33

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: 123.15  E-value: 7.07e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPFTILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIII 78
Cdd:COG2204     1 SMARILVVDDDPDIRRLLKELLERagYEVETAASGEEALALLRE-EPPDLVLLDLRMPGMDGLELLRELRALDPDLPVIL 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:COG2204    80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALE 119
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
3-233 2.42e-31

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 116.03  E-value: 2.42e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   3 FTILLVDDDKHFREIFRYYLNDYIIIEASYGRDALNILKKPHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:COG2207    22 LLLLLLILLLLALVLLLLLLALLLLLLLLLGLLGGLLLLLLLLLLLGLLLLLLLLLLGLLLLALLALLLLVGLLLLLLLL 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENKIFGDESLGNDVPGKVELAKSYIERNSQKMVSLKEVAQALCLS 162
Cdd:COG2207   102 LLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLS 181

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1482993591 163 PKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTEYRK 233
Cdd:COG2207   182 PRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSISEIAYELGFSSQSHFSRAFKKRFGVTPSEYRK 252
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 6-103 3.69e-28

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: 102.69  E-value: 3.69e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   6 LLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHS 83
Cdd:cd00156     1 LIVDDDPAIRELLKSLLERegYEVDTAADGEEALELLREER-PDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKA 79

                          90       100
                  ....*....|....*....|
gi 1482993591  84 SKEVAIDALRGHADDYMEKP 103
Cdd:cd00156    80 DEEDAVRALELGADDYLVKP 99
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 5-114 9.89e-28

Response regulator receiver domain; This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain.


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 102.23  E-value: 9.89e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKegYVVAEADDGKEALELLKE-ERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAH 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQ 114
Cdd:pfam00072  80 GDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
150-232 4.54e-27

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 99.55  E-value: 4.54e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  150 VSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPT 229
Cdd:smart00342   2 LTLEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPS 81


                   ...
gi 1482993591  230 EYR 232
Cdd:smart00342  82 EYR 84
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-120 9.64e-27

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: 102.94  E-value: 9.64e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPFTILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQL--APETSI 76
Cdd:COG3437     5 QAPTVLIVDDDPENLELLRQLLRTlgYDVVTAESGEEALELLLE-APPDLILLDVRMPGMDGFELLRLLRADpsTRDIPV 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1482993591  77 IILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENK 120
Cdd:COG3437    84 IFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELR 127
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 4-118 2.31e-26

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: 99.15  E-value: 2.31e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLA--PETSIIIL 79
Cdd:COG0784     7 RILVVDDNPDNRELLRRLLERlgYEVTTAEDGAEALELLRAGP-PDLILLDINMPGMDGLELLRRIRALPrlPDIPIIAL 85

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:COG0784    86 TAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLA 124
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 4-114 2.33e-26

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: 101.57  E-value: 2.33e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:COG0745     3 RILVVEDDPDIRELLADALerEGYEVDTAADGEEALELLEE-ERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIMLTA 81

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPID----VNRIKNLIQ 114
Cdd:COG0745    82 RDDEEDRVRGLEAGADDYLTKPFDpeelLARIRALLR 118
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-132 5.49e-26

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 98.50  E-value: 5.49e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPFTILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSI 76
Cdd:COG4565     2 KMIRVLIVEDDPMVAELLRRYLERLpgfeVVGVASSGEEALALLAE-HRPDLILLDIYLPDGDGLELLRELRARGPDVDV 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1482993591  77 IILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENKIFGDESLGNDVP 132
Cdd:COG4565    81 IVITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLLREDQEEDLP 136
HTH_18 pfam12833
Helix-turn-helix domain;
155-233 1.57e-25

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 95.35  E-value: 1.57e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 155 VAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLL-KATDYNISQVADKLGYENPESFIRGFKKVTSLTPTEYRK 233
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 4-103 1.76e-25

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: 96.00  E-value: 1.76e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:COG4753     1 KVLIVDDEPLIREGLKRILEWEagfeVVGEAENGEEALELLEE-HKPDLVITDINMPGMDGLELLEAIRELDPDTKIIIL 79

                          90       100
                  ....*....|....*....|....
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKP 103
Cdd:COG4753    80 SGYSDFEYAQEAIKLGADDYLLKP 103
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 5-118 3.44e-25

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: 95.73  E-value: 3.44e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHLiDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd17572     1 VLLVEDSPSLAALYQEYLSDegYKVTHVETGKEALAFLSDQPP-DVVLLDLKLPDMSGMEILKWIQERSLPTSVIVITAH 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:cd17572    80 GSVDIAVEAMRLGAYDFLEKPFDADRLRVTVRNALK 115
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 2-105 1.06e-24

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: 96.52  E-value: 1.06e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   2 PFTILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLaPETS---I 76
Cdd:COG3706     1 PARILVVDDDPTNRKLLRRLLeaAGYEVVEAADGEEALELLQE-HRPDLILLDLEMPDMDGLELCRRLRAD-PRTAdipI 78

                          90       100
                  ....*....|....*....|....*....
gi 1482993591  77 IILTGHSSKEVAIDALRGHADDYMEKPID 105
Cdd:COG3706    79 IFLTALDDEEDRARALEAGADDYLTKPFD 107
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 5-118 1.17e-23

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: 92.02  E-value: 1.17e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYY-----LNDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:cd17536     1 VLIVDDEPLIREGLKKLidweeLGFEVVGEAENGEEALELIEE-HKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIIL 79

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:cd17536    80 SGYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 3-118 4.40e-23

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: 90.15  E-value: 4.40e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   3 FTILLVDDDKH----FREIFRYYlnDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIII 78
Cdd:cd17569     1 PTILLVDDEPNilkaLKRLLRRE--GYEVLTATSGEEALEILKQ-EPVDVVISDQRMPGMDGAELLKRVRERYPDTVRIL 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1482993591  79 LTGHSSKEVAIDAL-RGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:cd17569    78 LTGYADLDAAIEAInEGEIYRFLTKPWDDEELKETIRQALE 118
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 6-103 1.38e-21

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: 85.92  E-value: 1.38e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   6 LLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHS 83
Cdd:cd17574     1 LVVEDDEEIAELLSDYLekEGYEVDTAADGEEALELARE-EQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAKD 79

                          90       100
                  ....*....|....*....|
gi 1482993591  84 SKEVAIDALRGHADDYMEKP 103
Cdd:cd17574    80 EEEDKVLGLELGADDYITKP 99
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 5-118 1.57e-21

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: 86.01  E-value: 1.57e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd17550     1 ILIVDDEEDIRESLSGILEDegYEVDTAADGEEALKLIKE-RRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMISGH 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:cd17550    80 GTIETAVKATKLGAYDFIEKPLSLDRLLLTIERALE 115
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 4-104 3.51e-21

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: 85.33  E-value: 3.51e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:cd17555     2 TILVIDDDEVVRESIAAYLEDsgFQVLQAADGRQGLELFRS-EQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIVVSG 80

                          90       100
                  ....*....|....*....|...
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPI 104
Cdd:cd17555    81 AGVMSDAVEALRLGAWDYLTKPI 103
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 141-234 4.29e-20

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 87.14  E-value: 4.29e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 141 YIERNSQKMVSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGF 220
Cdd:COG4977   218 WMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAACGFGSASHFRRAF 297

                          90
                  ....*....|....
gi 1482993591 221 KKVTSLTPTEYRKT 234
Cdd:COG4977   298 RRRFGVSPSAYRRR 311
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 4-120 2.21e-19

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 83.71  E-value: 2.21e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:COG3279     3 KILIVDDEPLARERLERLLEKYpdleVVGEASNGEEALELLEE-HKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIFT 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1482993591  80 TGHSskEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENK 120
Cdd:COG3279    82 TAYD--EYALEAFEVNAVDYLLKPIDEERLAKALEKAKERL 120
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 5-118 2.61e-19

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: 80.25  E-value: 2.61e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILT 80
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEpdieVVGEAADGEEALALLRE-LRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLT 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:cd17535    80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 4-109 1.81e-18

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: 77.87  E-value: 1.81e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:cd17563     2 SLLLVDDDEVFAERLARALerRGFEVETAHSVEEALALARE-EKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVLTG 80

                          90       100
                  ....*....|....*....|....*...
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPIDVNRI 109
Cdd:cd17563    81 YASIATAVEAIKLGADDYLAKPADADEI 108
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 4-109 3.65e-17

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: 76.49  E-value: 3.65e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLN--DYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:COG4567     6 SLLLVDDDEAFARVLARALErrGFEVTTAASVEEALALLEQ-APPDYAVLDLRLGDGSGLDLIEALRERDPDARIVVLTG 84

                          90       100
                  ....*....|....*....|....*...
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPIDVNRI 109
Cdd:COG4567    85 YASIATAVEAIKLGADDYLAKPADADDL 112
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 5-113 1.12e-16

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: 73.27  E-value: 1.12e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLN--DYIIIEASYGRDALNILKKPHLiDLIVLDQMLPDVRG---TELLHQMKQLAPETSIIIL 79
Cdd:cd17546     1 VLVVDDNPVNRKVLKKLLEklGYEVDVAENGQEALELLKEEPF-DLVLMDLQMPVMDGleaTRRIRELEGGGRRTPIIAL 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLI 113
Cdd:cd17546    80 TANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 4-110 1.51e-16

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


Pssm-ID: 381133 [Multi-domain]  Cd Length: 118  Bit Score: 73.05  E-value: 1.51e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKPhLIDLIVLDQMLPDVRGTELLHQMK--QLAPETSIIIL 79
Cdd:cd17618     2 TILIVEDEPAIREMIAFNLerAGFDVVEAEDAESAVNLIVEP-RPDLILLDWMLPGGSGIQFIRRLKrdEMTRDIPIIML 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPID----VNRIK 110
Cdd:cd17618    81 TARGEEEDKVRGLEAGADDYITKPFSprelVARIK 115
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
141-233 1.68e-16

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 76.55  E-value: 1.68e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 141 YIERNSQKMVSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGF 220
Cdd:PRK10572  191 YISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQLYFSRVF 270

                          90
                  ....*....|...
gi 1482993591 221 KKVTSLTPTEYRK 233
Cdd:PRK10572  271 KKCTGASPSEFRA 283
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 5-118 3.38e-16

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: 72.52  E-value: 3.38e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLN--DYIIIEASYGRDALNILKkPHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd17549     1 VLLVDDDADVREALQQTLElaGFRVRAFADAEEALAALS-PDFPGVVISDIRMPGMDGLELLAQIRELDPDLPVILITGH 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:cd17549    80 GDVPMAVEAMRAGAYDFLEKPFDPERLLDVVRRALE 115
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 4-115 1.81e-15

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: 70.35  E-value: 1.81e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:cd19925     2 NVLIVEDDPMVAEIHRAYVEQVpgftVIGTAGTGEEALKLLKERQ-PDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVV 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQK 115
Cdd:cd19925    81 TAANDVETVREALRLGVVDYLIKPFTFERLRQRLER 116
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
4-162 3.17e-15

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 74.11  E-value: 3.17e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFR--YYLNDYIIIEASYGRDALNILKKPHLiDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:PRK11361    6 RILIVDDEDNVRRMLStaFALQGFETHCANNGRTALHLFADIHP-DVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTA 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENKIFGDE--SLgndvpgKVELAKSY----IERNSQKMVSLKEV 155
Cdd:PRK11361   85 YAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQLQSMKKEirHL------HQALSTSWqwghILTNSPAMMDICKD 158


                  ....*..
gi 1482993591 156 AQALCLS 162
Cdd:PRK11361  159 TAKIALS 165
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 4-112 4.53e-15

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


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 69.01  E-value: 4.53e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLND--YIIIEA-SYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETS--III 78
Cdd:cd17551     2 RILIVDDNPTNLLLLEALLRSagYLEVVSfTDPREALAWCRE-NPPDLILLDYMMPGMDGLEFIRRLRALPGLEDvpIVM 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPID----VNRIKNL 112
Cdd:cd17551    81 ITADTDREVRLRALEAGATDFLTKPFDpvelLARVRNL 118
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 6-113 5.45e-15

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: 68.84  E-value: 5.45e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   6 LLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQlAPETS---IIILT 80
Cdd:cd19937     1 LVVDDEEDIVELLKYNLEKegYEVVTAYDGEEALKRAKD-EKPDLIILDLMLPGIDGLEVCRILRS-DPKTSsipIIMLT 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKPIDVN----RIKNLI 113
Cdd:cd19937    79 AKGEEFDKVLGLELGADDYITKPFSPRellaRVKAVL 115
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 4-116 6.13e-15

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: 68.79  E-value: 6.13e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:cd17554     2 KILVVDDEENIRELYKEELEDegYEVVTAGNGEEALEKLESED-PDLVILDIKMPGMDGLETLRKIREKKPDLPVIICTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1482993591  82 HSSKEVAIDALRghADDYMEKPIDVNRIKNLIQKI 116
Cdd:cd17554    81 YSEYKSDFSSWA--ADAYVVKSSDLTELKETIKRL 113
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 135-233 1.06e-14

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 72.39  E-value: 1.06e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 135 VELAKSYIERNSQKMVSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKaTDYNISQVADKLGYENPE 214
Cdd:COG2169    86 VARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQ-TGLSVTDAAYAAGFGSLS 164

                          90
                  ....*....|....*....
gi 1482993591 215 SFIRGFKKVTSLTPTEYRK 233
Cdd:COG2169   165 RFYEAFKKLLGMTPSAYRR 183
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 5-103 1.64e-14

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


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 67.19  E-value: 1.64e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNI--LKKPhliDLIVLDQMLPDVRGTELLHQMKQLApETSIIILT 80
Cdd:cd17620     1 ILVIEDEPQIRRFLRTALEAhgYRVFEAETGQEGLLEaaTRKP---DLIILDLGLPDMDGLEVIRRLREWS-AVPVIVLS 76

                          90       100
                  ....*....|....*....|...
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKP 103
Cdd:cd17620    77 ARDEESDKIAALDAGADDYLTKP 99
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
5-117 4.51e-14

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 70.83  E-value: 4.51e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:PRK10365    8 ILVVDDDISHCTILQALLRGwgYNVALANSGRQALEQVRE-QVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTAY 86

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:PRK10365   87 SSVETAVEALKTGALDYLIKPLDFDNLQATLEKAL 121
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 3-117 5.10e-14

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: 66.15  E-value: 5.10e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   3 FTILLVDDDKHFREIFRYYL---NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:cd17542     1 KKVLIVDDAAFMRMMLKDILtkaGYEVVGEAANGEEAVEKYKE-LKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMC 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:cd17542    80 SAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKVL 117
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 4-104 8.85e-14

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


Pssm-ID: 381093 [Multi-domain]  Cd Length: 104  Bit Score: 65.21  E-value: 8.85e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLN--DYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQlAPETS---III 78
Cdd:cd17538     1 KILVVDDEPANRELLEALLSaeGYEVLTADSGQEALALAEE-ELPDLILLDVMMPGMDGFEVCRRLKE-DPETRhipVIM 78

                          90       100
                  ....*....|....*....|....*.
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPI 104
Cdd:cd17538    79 ITALDDREDRIRGLEAGADDFLSKPI 104
REC_TrxB cd17595
phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase ...
 5-105 1.10e-13

phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase output domain; This family is composed of uncharacterized fusion proteins containing a REC domain and a thioredoxin reductase domain. Thioredoxin reductase catalyzes the reduction of thioredoxin and is thus a central component in the thioredoxin system. Fusion proteins containing REC and thioredoxin reductase domains could play an important role in the environmental regulation of the cellular dithiol-disulfide ratio. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381126 [Multi-domain]  Cd Length: 135  Bit Score: 65.82  E-value: 1.10e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHF-----REIFRYYLNDYIIIEASYGRDALNILKKPHL----IDLIVLDQMLPDVRGTELLHQMKQLAPETS 75
Cdd:cd17595     3 ILTVDDDPQVlravaRDLRRQYGKDYRVLRADSGAEALDALKELKLrgeaVALFLVDQRMPEMDGVEFLEKAMELFPEAK 82

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1482993591  76 IIILTGHSSKEVAIDALRG-HADDYMEKPID 105
Cdd:cd17595    83 RVLLTAYADTDAAIRAINDvQLDYYLLKPWD 113
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 4-115 1.23e-13

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: 65.45  E-value: 1.23e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLN--DYIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:cd17615     1 RVLVVDDEPNITELLSMALRyeGWDVETAADGAEALAAAREFR-PDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLTA 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPID----VNRIKNLIQK 115
Cdd:cd17615    80 KDSVEDRIAGLTAGGDDYVTKPFSleevVARLRALLRR 117
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 4-117 2.94e-13

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


Pssm-ID: 381110 [Multi-domain]  Cd Length: 118  Bit Score: 64.24  E-value: 2.94e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLaPE---TSIII 78
Cdd:cd17562     2 KILAVDDSASIRQMVSFTLRGagYEVVEAADGRDALSKAQSKK-FDLIITDQNMPNMDGIELIKELRKL-PAykfTPILM 79

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:cd17562    80 LTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKVL 118
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 6-115 4.11e-13

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: 63.78  E-value: 4.11e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   6 LLVDDDKHFREIFRYYLND--YIIIEASYGRDALN-ILKKPHliDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd17625     1 LVVEDEKDLSEAITKHLKKegYTVDVCFDGEEGLEyALSGIY--DLIILDIMLPGMDGLEVLKSLREEGIETPVLLLTAL 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVN----RIKNLIQK 115
Cdd:cd17625    79 DAVEDRVKGLDLGADDYLPKPFSLAellaRIRALLRR 115
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 4-115 4.48e-13

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: 63.71  E-value: 4.48e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLN--DYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQlAPETS---III 78
Cdd:cd17548     1 KILIVEDNPLNMKLARDLLEsaGYEVLEAADGEEALEIARK-EKPDLILMDIQLPGMDGLEATRLLKE-DPATRdipVIA 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQK 115
Cdd:cd17548    79 LTAYAMKGDREKILEAGCDGYISKPIDTREFLETVAK 115
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 4-115 6.58e-13

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: 63.45  E-value: 6.58e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLNDYIIIEASY--GRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:cd19919     2 TVWIVDDDSSIRWVLERALAGAGLTVTSFenAQEALAALAS-SQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIMTA 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQK 115
Cdd:cd19919    81 HSDLDSAVSAYQGGAFEYLPKPFDIDEAVALVER 114
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 5-115 1.46e-12

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


Pssm-ID: 381142 [Multi-domain]  Cd Length: 116  Bit Score: 62.40  E-value: 1.46e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNIL--KKPhliDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILT 80
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLrfEGYEVETAVDGAEALRVIsgNRP---DAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLT 77

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKPID----VNRIKNLIQK 115
Cdd:cd17627    78 ARDSVSDRVAGLDAGADDYLVKPFAleelLARVRALLRR 116
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 5-114 2.53e-12

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: 61.73  E-value: 2.53e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHLiDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd17624     1 ILLVEDDALLGDGLKTGLRKagYAVDWVRTGAEAEAALASGPY-DLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILTAR 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPID----VNRIKNLIQ 114
Cdd:cd17624    80 DGVDDRVAGLDAGADDYLVKPFAleelLARLRALLR 115
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 5-115 5.58e-12

PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]


Pssm-ID: 274348 [Multi-domain]  Cd Length: 445  Bit Score: 64.77  E-value: 5.58e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLNDYIIIEASYGRDALNILKKpHLIDLIVLDQMLP-DV----RGTELLHQMKQLAPETSIIIL 79
Cdd:TIGR02915   1 LLIVEDDLGLQKQLKWSFADYELAVAADRESAIALVRR-HEPAVVTLDLGLPpDAdgasEGLAALQQILAIAPDTKVIVI 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQK 115
Cdd:TIGR02915  80 TGNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDR 115
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 5-118 7.67e-12

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: 60.63  E-value: 7.67e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILT 80
Cdd:cd17532     1 ALIVDDEPLAREELRYLLEEHpdieIVGEAENGEEALEAIEE-LKPDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVFVT 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1482993591  81 GHssKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:cd17532    80 AY--DEYAVEAFELNAVDYLLKPFSEERLAEALAKLRK 115
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 49-118 9.25e-12

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: 62.04  E-value: 9.25e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  49 IVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:COG4566    47 LLLDVRMPGMSGLELQEELAARGSPLPVIFLTGHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALA 116
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 5-103 1.03e-11

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


Pssm-ID: 381162 [Multi-domain]  Cd Length: 100  Bit Score: 59.76  E-value: 1.03e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd19935     1 ILVVEDEKKLAEYLKKGLTEegYAVDVAYDGEDGLHLALT-NEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPVLMLTAR 79

                          90       100
                  ....*....|....*....|.
gi 1482993591  83 SSKEVAIDALRGHADDYMEKP 103
Cdd:cd19935    80 DSVEDRVKGLDLGADDYLVKP 100
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 5-103 2.31e-11

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: 58.93  E-value: 2.31e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSI--IILT 80
Cdd:cd19927     1 ILLVDDDPGIRLAVKDYLEDqgFTVIAASNGLEALDLLNQYI-PDLIISDIIMPGVDGYSLLGKLRKNADFDTIpvIFLT 79

                          90       100
                  ....*....|....*....|...
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKP 103
Cdd:cd19927    80 AKGMTSDRIKGYNAGCDGYLSKP 102
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 5-117 2.32e-11

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: 59.27  E-value: 2.32e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLNDY---IIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELL------HQMKqlapETS 75
Cdd:cd19923     3 VLVVDDFSTMRRIIKNLLKELgfnNVEEAEDGVDALEKLKAGG-FDFVITDWNMPNMDGLELLktiradGALS----HLP 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1482993591  76 IIILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:cd19923    78 VLMVTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKIF 119
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 5-113 3.64e-11

phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is part of the CckA-ChpT-CtrA phosphorelay that is conserved in alphaproteobacteria and is important in orchestrating the cell cycle, polar development, and flagellar biogenesis. CtrA is the master regulator of flagella synthesis genes and also regulates genes involved in the cell cycle, exopolysaccharide synthesis, and cyclic-di-GMP signaling. CtrA is active as a transcription factor when phosphorylated. It is a member of the OmpR family of DNA-binding response regulators, 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: 381132 [Multi-domain]  Cd Length: 114  Bit Score: 58.57  E-value: 3.64e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNiLKKPHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd17616     1 VLLIEDDSATAQSIELMLKSegFNVYTTDLGEEGLD-LGKLYDYDIILLDLNLPDMSGYEVLRTLRLAKVKTPILILSGL 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPID----VNRIKNLI 113
Cdd:cd17616    80 ADIEDKVKGLGFGADDYMTKPFHkdelVARIHAIV 114
orf27 CHL00148
Ycf27; Reviewed
 5-119 6.14e-11

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 60.50  E-value: 6.14e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIF--RYYLNDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQlAPETSIIILTGH 82
Cdd:CHL00148    9 ILVVDDEAYIRKILetRLSIIGYEVITASDGEEALKLFRK-EQPDLVILDVMMPKLDGYGVCQEIRK-ESDVPIIMLTAL 86

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILEN 119
Cdd:CHL00148   87 GDVSDRITGLELGADDYVVKPFSPKELEARIRSVLRR 123
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 5-110 1.06e-10

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: 57.32  E-value: 1.06e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQlAPETSIIILTGH 82
Cdd:cd17623     1 ILLIDDDRELTELLTEYLemEGFNVRAAHDGEQGLAALLE-GSPDLVVLDVMLPKMNGLDVLKELRK-TSQVPVLMLTAR 78

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPID----VNRIK 110
Cdd:cd17623    79 GDDIDRILGLELGADDYLPKPFNprelVARIR 110
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
5-208 1.19e-10

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 59.43  E-value: 1.19e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLN--DYIIIEASYGRDALNILKKPhlIDLIVLDQMLPDVRGTELLHQMKQlAPETSIIILTGH 82
Cdd:PRK10955    4 ILLVDDDRELTSLLKELLEmeGFNVIVAHDGEQALDLLDDS--IDLLLLDVMMPKKNGIDTLKELRQ-THQTPVIMLTAR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENKIFGDESLGNDV-------------PGKVE--LAKSYIERNSQ 147
Cdd:PRK10955   81 GSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSHWSEQQQNNDNgsptlevdalslnPGRQEasFDGQTLELTGT 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1482993591 148 KMVSLKEVAQAL--CLSPKYLSrifKESTGKNFTHFRlevkmemaknllKATDYNISQVADKL 208
Cdd:PRK10955  161 EFTLLYLLAQHLgqVVSREHLS---QEVLGKRLTPFD------------RAIDMHISNLRRKL 208
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 5-116 1.61e-10

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: 57.02  E-value: 1.61e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLN---DYIII-EASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPeTSIIILT 80
Cdd:cd17541     3 VLIVDDSAVMRKLLSRILEsdpDIEVVgTARDGEEALEKIKE-LKPDVITLDIEMPVMDGLEALRRIMAERP-TPVVMVS 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1482993591  81 GHSSK--EVAIDALRGHADDYMEKP-----IDVNRIKN-LIQKI 116
Cdd:cd17541    81 SLTEEgaEITLEALELGAVDFIAKPsggisLDLEEIAEeLIEKI 124
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 4-92 2.70e-10

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


Pssm-ID: 381127 [Multi-domain]  Cd Length: 133  Bit Score: 56.61  E-value: 2.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYL-NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd17596     2 TILVVDDEVRSLEALRRTLeEDFDVLTAASAEEALAILEE-EWVQVILCDQRMPGTTGVEFLKEVRERWPEVVRIIISGY 80

                          90
                  ....*....|
gi 1482993591  83 SSKEVAIDAL 92
Cdd:cd17596    81 TDSEDIIAGI 90
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 5-117 3.38e-10

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


Pssm-ID: 381121 [Multi-domain]  Cd Length: 115  Bit Score: 56.10  E-value: 3.38e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFR--YYLNDYIIIEASYGRDALNIL-KKPHLIDLIVLDQMLPDVRGTELLHQMKqLAPETSIIILTG 81
Cdd:cd17584     1 VLVVDDDPTCLAILKrmLLRCGYQVTTCTDAEEALSMLrENKDEFDLVITDVHMPDMDGFEFLELIR-LEMDLPVIMMSA 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:cd17584    80 DGSTSTVMKGLAHGACDYLLKPVSIEDLKNIWQHVV 115
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 3-117 3.65e-10

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: 55.68  E-value: 3.65e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   3 FTILLVDDDKHFREIFRYYLNdyiiieaSYGRD------ALNILKKPHLID--LIVLDQMLPDVRGTELLHQMKQLAPET 74
Cdd:cd17537     1 ATVYVVDDDEAVRDSLAFLLR-------SVGLAvktftsASAFLAAAPPDQpgCLVLDVRMPGMSGLELQDELLARGSNI 73

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1482993591  75 SIIILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:cd17537    74 PIIFITGHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQAL 116
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 4-115 6.06e-10

phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is part of the VirA/VirG two-component system that regulates the expression of virulence (vir) genes. The histidine kinase VirA senses a phenolic wound response signal, undergoes autophosphorylation, and phosphorelays to the VirG response regulator, which induces transcription of the vir regulon. VirG 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: 381125 [Multi-domain]  Cd Length: 113  Bit Score: 55.15  E-value: 6.06e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLND--YIIIEASYGR-DALNILKKPHliDLIVLDQMLPDVRGTELLHQMKQLApETSIIILT 80
Cdd:cd17594     1 HVLVVDDDAAMRHLLILYLRErgFDVTAAADGAeEARLMLHRRV--DLVLLDLRLGQESGLDLLRTIRARS-DVPIIIIS 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  81 GHSSKEVAID-ALRGHADDYMEKPIDVNRIKNLIQK 115
Cdd:cd17594    78 GDRRDEIDRVvGLELGADDYLAKPFGLRELLARVRA 113
PRK15115 PRK15115
response regulator GlrR; Provisional
 2-158 6.22e-10

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 58.70  E-value: 6.22e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   2 PFTILLVDDDKHFREIF--RYYLNDYIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:PRK15115    5 PAHLLLVDDDPGLLKLLgmRLTSEGYSVVTAESGQEALRVLNREK-VDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIIL 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIqkilenkifgDESLGNDVPGKVELAKSYIERNSQKMVSLKE----V 155
Cdd:PRK15115   84 TAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAI----------DDALEQSAPATDERWREAIVTRSPLMLRLLEqarmV 153


                  ...
gi 1482993591 156 AQA 158
Cdd:PRK15115  154 AQS 156
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 4-103 6.29e-10

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


Pssm-ID: 381144 [Multi-domain]  Cd Length: 103  Bit Score: 54.82  E-value: 6.29e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTG 81
Cdd:cd18160     1 TILLADDEPSVRKFIVTTLKKagYAVTEAESGAEALEKLQQGKDIDIVVTDIVMPEMDGIELAREARKIDPDVKILFISG 80

                          90       100
                  ....*....|....*....|..
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKP 103
Cdd:cd18160    81 GAAAAPELLSDAVGDNATLKKP 102
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 5-89 8.47e-10

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


Pssm-ID: 381145 [Multi-domain]  Cd Length: 102  Bit Score: 54.66  E-value: 8.47e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHLIDLIVLDQMLPD-VRGTELLHQMKQLAPETSIIILTG 81
Cdd:cd18161     1 VLVVEDDPDVRRLTAEVLEDlgYTVLEAASGDEALDLLESGPDIDLLVTDVIMPGgMNGSQLAEEARRRRPDLKVLLTSG 80


                  ....*...
gi 1482993591  82 HSskEVAI 89
Cdd:cd18161    81 YA--ENAI 86
PRK10296 PRK10296
DNA-binding transcriptional regulator ChbR; Provisional
 109-233 8.66e-10

DNA-binding transcriptional regulator ChbR; Provisional


Pssm-ID: 182362 [Multi-domain]  Cd Length: 278  Bit Score: 57.46  E-value: 8.66e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 109 IKNLIQKILENKIFGDESLGNdvpgkvelaksyiernsqkMVSLKEVAQalclspKYLSRIFKESTGKNFTHFRLEVKME 188
Cdd:PRK10296  173 LKATVEKMHDKEQFSESALEN-------------------MVRLSGKSQ------EYLTRATRRYYGKTPMQIINEIRIN 227

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1482993591 189 MAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTEYRK 233
Cdd:PRK10296  228 FAKKQLEMTNYSVTDIAFEAGYSSPSLFIKTFKKLTSFTPGSYRK 272
fixJ PRK09390
response regulator FixJ; Provisional
 49-164 9.40e-10

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 56.55  E-value: 9.40e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  49 IVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENKIFG--DES 126
Cdd:PRK09390   51 VVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAakSEA 130

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1482993591 127 LGNDVPGKVElakSYIERNSQKMVSL------KEVAQALCLSPK 164
Cdd:PRK09390  131 VAADIRARIA---SLSERERQVMDGLvaglsnKVIARDLDISPR 171
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 5-115 9.93e-10

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: 54.60  E-value: 9.93e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALnILKKPHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDagYVVDVAEDGEEAL-FQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLILTAR 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVN----RIKNLIQK 115
Cdd:cd19934    80 DSWQDKVEGLDAGADDYLTKPFHIEellaRLRALIRR 116
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 5-117 1.02e-09

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


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 54.87  E-value: 1.02e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:cd17553     3 ILIVDDQYGIRILLNEVFNKegYQTFQAANGLQALDIVTK-ERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMTAY 81

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:cd17553    82 GELDMIQESKELGALTHFAKPFDIDEIRDAVKKYL 116
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 5-113 1.21e-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: 54.39  E-value: 1.21e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAP--ETSIIILT 80
Cdd:cd17580     1 ILVVDDNEDAAEMLALLLELegAEVTTAHSGEEALEAAQR-FRPDVILSDIGMPGMDGYELARRLRELPWlaNTPAIALT 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKPIDVNRIKNLI 113
Cdd:cd17580    80 GYGQPEDRERALEAGFDAHLVKPVDPDELIELI 112
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-114 1.22e-09

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: 56.12  E-value: 1.22e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPFTILLVDDDKHFREIFRYYLND---YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPeTSII 77
Cdd:COG3707     2 RGLRVLVVDDEPLRRADLREGLREagyEVVAEAADGEDAVELVRE-LKPDLVIVDIDMPDRDGLEAARQISEERP-APVI 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1482993591  78 ILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQ 114
Cdd:COG3707    80 LLTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALE 116
dpiA PRK10046
two-component response regulator DpiA; Provisional
 2-120 1.39e-09

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 56.56  E-value: 1.39e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   2 PFTILLVDDDKHFREIFRYYLN-----DYIIIEASYGRDALNILK-KPhliDLIVLDQMLPDVRGTELLHQMKQLAPETS 75
Cdd:PRK10046    4 PLTLLIVEDETPLAEMHAEYIRhipgfSQILLAGNLAQARMMIERfKP---GLILLDNYLPDGRGINLLHELVQAHYPGD 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1482993591  76 IIILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENK 120
Cdd:PRK10046   81 VVFTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTLTRFRQRK 125
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 4-118 1.39e-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: 54.73  E-value: 1.39e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKH----FREIFRYYLNDYIIIEASYGRDALNILKKP------HLIDLIVLDQMLPDVRGTELLHQMKQlAPE 73
Cdd:cd17557     1 TILLVEDNPGdaelIQEAFKEAGVPNELHVVRDGEEALDFLRGEgeyadaPRPDLILLDLNMPRMDGFEVLREIKA-DPD 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 1482993591  74 TS---IIILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:cd17557    80 LRripVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSLGE 127
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
1-116 1.54e-09

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 56.27  E-value: 1.54e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPFTILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKPhLIDLIVLDQMLPDVRGTELLHQMKQ--LAPETSI 76
Cdd:PRK10161    1 MARRILVVEDEAPIREMVCFVLeqNGFQPVEAEDYDSAVNQLNEP-WPDLILLDWMLPGGSGIQFIKHLKResMTRDIPV 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1482993591  77 IILTGHSSKEVAIDALRGHADDYMEKPID----VNRIKNLIQKI 116
Cdd:PRK10161   80 VMLTARGEEEDRVRGLETGADDYITKPFSpkelVARIKAVMRRI 123
ompR PRK09468
osmolarity response regulator; Provisional
 5-110 1.56e-09

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 56.52  E-value: 1.56e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGrDALNILKKPHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:PRK09468    8 ILVVDDDMRLRALLERYLTEqgFQVRSAANA-EQMDRLLTRESFHLMVLDLMLPGEDGLSICRRLRSQNNPTPIIMLTAK 86

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPID----VNRIK 110
Cdd:PRK09468   87 GEEVDRIVGLEIGADDYLPKPFNprelLARIR 118
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 5-111 2.30e-09

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


Pssm-ID: 381134 [Multi-domain]  Cd Length: 113  Bit Score: 53.54  E-value: 2.30e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLApETSIIILTGH 82
Cdd:cd17619     3 ILIVEDEPVTRATLKSYFEQegYDVSEAGDGEEMRQILARQD-IDLVLLDINLPGKDGLSLTRELREQS-EVGIILVTGR 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPID----VNRIKN 111
Cdd:cd17619    81 DDEVDRIVGLEIGADDYVTKPFNprelLVRAKN 113
PRK11517 PRK11517
DNA-binding response regulator HprR;
5-103 2.44e-09

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 55.67  E-value: 2.44e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHLiDLIVLDQMLPDVRGTELLHQMKQlAPETSIIILTGH 82
Cdd:PRK11517    3 ILLIEDNQRTQEWVTQGLSEagYVIDAVSDGRDGLYLALKDDY-ALIILDIMLPGMDGWQILQTLRT-AKQTPVICLTAR 80

                          90       100
                  ....*....|....*....|.
gi 1482993591  83 SSKEVAIDALRGHADDYMEKP 103
Cdd:PRK11517   81 DSVDDRVRGLDSGANDYLVKP 101
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 4-88 2.80e-09

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: 53.74  E-value: 2.80e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMkqLAP-ETSII- 77
Cdd:COG2197     3 RVLIVDDHPLVREGLRALLEAEpdieVVGEAADGEEALELLEE-LRPDVVLLDIRMPGMDGLEALRRL--LTPrEREVLr 79

                          90
                  ....*....|..
gi 1482993591  78 -ILTGHSSKEVA 88
Cdd:COG2197    80 lLAEGLSNKEIA 91
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 5-117 3.51e-09

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 56.42  E-value: 3.51e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLNDYIIIEASY--GRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:PRK10923    6 VWVVDDDSSIRWVLERALAGAGLTCTTFenGNEVLEALAS-KTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMTAH 84

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:PRK10923   85 SDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAI 119
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 5-103 4.50e-09

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: 52.81  E-value: 4.50e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILK--KPhliDLIVLDQMLPDVRGTELLHQMKQLApETSIIILT 80
Cdd:cd17614     1 ILVVDDEKPISDILKFNLTKegYEVVTAYDGREALEKVEeeQP---DLILLDLMLPEKDGLEVCREVRKTS-NVPIIMLT 76

                          90       100
                  ....*....|....*....|...
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKP 103
Cdd:cd17614    77 AKDSEVDKVLGLELGADDYVTKP 99
PRK10766 PRK10766
two-component system response regulator TorR;
1-116 4.56e-09

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 55.04  E-value: 4.56e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPFTILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLApETSIII 78
Cdd:PRK10766    1 MSYHILVVEDEPVTRARLQGYFEQegYTVSEAASGAGMREIMQNQH-VDLILLDINLPGEDGLMLTRELRSRS-TVGIIL 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPID----VNRIKNLIQKI 116
Cdd:PRK10766   79 VTGRTDSIDRIVGLEMGADDYVTKPLElrelLVRVKNLLWRI 120
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 4-56 7.21e-09

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


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 50.64  E-value: 7.21e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1482993591    4 TILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLP 56
Cdd:smart00448   2 RILVVDDDPLLRELLKALLEKegYEVDEATDGEEALELLKE-EKPDLILLDIMMP 55
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 5-103 7.41e-09

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


Pssm-ID: 381098 [Multi-domain]  Cd Length: 122  Bit Score: 52.52  E-value: 7.41e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLN--DYIIIEASYGRDALNILKKPHLIDLIVLDQMLPDVRGTELLHQM-KQLAPET-SIIILT 80
Cdd:cd17544     3 VLVVDDSATSRNHLRALLRrhNFQVLEAANGQEALEVLEQHPDIKLVITDYNMPEMDGFELVREIrKKYSRDQlAIIGIS 82

                          90       100
                  ....*....|....*....|...
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKP 103
Cdd:cd17544    83 ASGDNALSARFIKAGANDFLTKP 105
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 5-80 1.02e-08

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


Pssm-ID: 381104 [Multi-domain]  Cd Length: 121  Bit Score: 52.17  E-value: 1.02e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND---YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMkQLAPETS---III 78
Cdd:cd17552     4 ILVIDDEEDIREVVQACLEKlagWEVLTASSGQEGLEKAAT-EQPDAILLDVMMPDMDGLATLKKL-QANPETQsipVIL 81


                  ..
gi 1482993591  79 LT 80
Cdd:cd17552    82 LT 83
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 4-103 1.35e-08

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 53.65  E-value: 1.35e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYL--NDYIIIEASYGRDAL--NILKKPhliDLIVLDQMLPDVRGTELLHQMKQLAPeTSIIIL 79
Cdd:PRK10529    3 NVLIVEDEQAIRRFLRTALegDGMRVFEAETLQRGLleAATRKP---DLIILDLGLPDGDGIEFIRDLRQWSA-IPVIVL 78

                          90       100
                  ....*....|....*....|....
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKP 103
Cdd:PRK10529   79 SARSEESDKIAALDAGADDYLSKP 102
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 2-102 1.58e-08

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 53.11  E-value: 1.58e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   2 PFTILLVDDDKHFR----EIFRYYLNDYIIIEASYGRDALnILKKPHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSII 77
Cdd:PRK10651    6 PATILLIDDHPMLRtgvkQLISMAPDITVVGEASNGEQGI-ELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIV 84

                          90       100
                  ....*....|....*....|....*
gi 1482993591  78 ILTGHSSKEVAIDALRGHADDYMEK 102
Cdd:PRK10651   85 VFSVSNHEEDVVTALKRGADGYLLK 109
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
140-234 1.60e-08

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 51.64  E-value: 1.60e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 140 SYIERNSQKMVSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRG 219
Cdd:PRK11511   16 DWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAERYGFESQQTLTRT 95

                          90
                  ....*....|....*
gi 1482993591 220 FKKVTSLTPTEYRKT 234
Cdd:PRK11511   96 FKNYFDVPPHKYRMT 110
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
141-234 1.73e-08

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 51.08  E-value: 1.73e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 141 YIERNSQKMVSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGF 220
Cdd:PRK10219   13 WIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVF 92

                          90
                  ....*....|....
gi 1482993591 221 KKVTSLTPTEYRKT 234
Cdd:PRK10219   93 RRQFDRTPSDYRHR 106
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 5-103 2.54e-08

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


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 50.23  E-value: 2.54e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIF-----RYYLNdyiIIEASYGRDALNILKKPHLiDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:cd19926     1 VLVVDDEPDIRELLeitlgRMGLD---VRSARNVKEARELLASEPY-DLCLTDMRLPDGSGLELVQHIQQRLPQTPVAVI 76

                          90       100
                  ....*....|....*....|....
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKP 103
Cdd:cd19926    77 TAYGSLDTAIEALKAGAFDFLTKP 100
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 5-104 5.95e-08

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


Pssm-ID: 381147 [Multi-domain]  Cd Length: 103  Bit Score: 49.43  E-value: 5.95e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQlAPETS---IIIL 79
Cdd:cd19920     1 ILIVDDVPDNLRLLSELLRAagYRVLVATDGQQALQRAQA-EPPDLILLDVMMPGMDGFEVCRRLKA-DPATRhipVIFL 78

                          90       100
                  ....*....|....*....|....*
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPI 104
Cdd:cd19920    79 TALTDTEDKVKGFELGAVDYITKPF 103
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
161-233 7.13e-08

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 52.21  E-value: 7.13e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1482993591 161 LSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTEYRK 233
Cdd:PRK13501  204 LVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276
ftrA PRK09393
transcriptional activator FtrA; Provisional
 151-233 7.41e-08

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 52.27  E-value: 7.41e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 151 SLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTE 230
Cdd:PRK09393  236 TVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLRHHFRRRAATSPAA 315


                  ...
gi 1482993591 231 YRK 233
Cdd:PRK09393  316 YRK 318
REC_TPR cd17589
phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...
 5-107 8.62e-08

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


Pssm-ID: 381123 [Multi-domain]  Cd Length: 115  Bit Score: 49.18  E-value: 8.62e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLNDY---IIIEASYGRDALNILKKPHLiDLIVLDQMLPDVR-GTELLHQM---KQLAPETSII 77
Cdd:cd17589     1 FLIVDDQPTFRSMLKSMLRSLgvtRIDTASSGEEALRMCENKTY-DIVLCDYNLGKGKnGQQLLEELrhkKLISPSTVFI 79

                          90       100       110
                  ....*....|....*....|....*....|
gi 1482993591  78 ILTGHSSKEVAIDALRGHADDYMEKPIDVN 107
Cdd:cd17589    80 MVTGESSRAMVLSALELEPDDYLLKPFTVS 109
PRK15369 PRK15369
two component system response regulator;
1-127 8.93e-08

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 51.23  E-value: 8.93e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPFTILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSI 76
Cdd:PRK15369    2 KNYKILLVDDHELIINGIKNMLAPYprykIVGQVDNGLEVYNACRQ-LEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNI 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1482993591  77 IILTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENKIFGDESL 127
Cdd:PRK15369   81 LVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPAL 131
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 4-113 1.18e-07

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: 48.91  E-value: 1.18e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQlAPETSIIILTg 81
Cdd:cd19938     1 RILIVEDEPKLAQLLIDYLraAGYAPTLLAHGDQVLPYVRH-TPPDLILLDLMLPGTDGLTLCREIRR-FSDVPIIMVT- 77

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1482993591  82 hsSKEVAIDALRG---HADDYMEKPID----VNRIKNLI 113
Cdd:cd19938    78 --ARVEEIDRLLGlelGADDYICKPYSprevVARVKAIL 114
REC_HP-RR-like cd17573
phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; ...
 47-107 1.20e-07

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


Pssm-ID: 381115 [Multi-domain]  Cd Length: 110  Bit Score: 48.97  E-value: 1.20e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1482993591  47 DLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHSSKEVAIDALRGHADDYMEKPIDVN 107
Cdd:cd17573    44 DLVLVSDKLPDGNGLSIVSRIKEKHPSIVVIVLSDNPKTEQEIEAFKEGADDYIAKPFDFK 104
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 1-103 1.22e-07

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 50.73  E-value: 1.22e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   1 MPfTILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIII 78
Cdd:PRK11083    3 QP-TILLVEDEQAIADTLVYALQSegFTVEWFERGLPALDKLRQ-QPPDLVILDVGLPDISGFELCRQLLAFHPALPVIF 80

                          90       100
                  ....*....|....*....|....*...
gi 1482993591  79 LTGHSSKevaIDALRG---HADDYMEKP 103
Cdd:PRK11083   81 LTARSDE---VDRLVGleiGADDYVAKP 105
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 5-103 1.59e-07

phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is a member of the SenX3-RegX3 two-component system that is involved in phosphate-sensing signal transduction. Phosphorylated RegX3 functions as a transcriptional activator of phoA. It induces transcription in phosphate limiting environment and also controls expression of several critical metabolic enzymes in aerobic condition. RegX3 belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381136 [Multi-domain]  Cd Length: 99  Bit Score: 48.35  E-value: 1.59e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLApETSIIILTGH 82
Cdd:cd17621     1 VLVVEDEESFSDPLAYLLRKegFEVTVATDGPAALAEFDRAG-ADIVLLDLMLPGLSGTEVCRQLRARS-NVPVIMVTAK 78

                          90       100
                  ....*....|....*....|.
gi 1482993591  83 SSKEVAIDALRGHADDYMEKP 103
Cdd:cd17621    79 DSEIDKVVGLELGADDYVTKP 99
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
 152-236 1.98e-07

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 50.76  E-value: 1.98e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 152 LKEVAQALCLSPKYLSRIFKEStGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTEY 231
Cdd:PRK15185  225 LTDVADHIFMSTSTLKRKLAEE-GTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303


                  ....*
gi 1482993591 232 RKTTD 236
Cdd:PRK15185  304 IKMAN 308
PRK10643 PRK10643
two-component system response regulator PmrA;
5-115 2.23e-07

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 50.03  E-value: 2.23e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHLiDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:PRK10643    3 ILIVEDDTLLLQGLILALQTegYACDCASTAREAEALLESGHY-SLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLILTAR 81

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVN----RIKNLIQK 115
Cdd:PRK10643   82 DTLEDRVAGLDVGADDYLVKPFALEelhaRIRALIRR 118
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 5-119 2.67e-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: 48.09  E-value: 2.67e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMK---QLApETSIIIL 79
Cdd:cd17598     1 ILIVEDSPTQAEQLKHILeeQGYKVQVARNGREALAMLAE-HRPTLVISDIVMPEMDGYELCRKIKsdpDLK-DIPVILL 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILEN 119
Cdd:cd17598    79 TTLSDPRDVIRGLECGADNFITKPYDEKYLLSRIKYILVN 118
pleD PRK09581
response regulator PleD; Reviewed
 25-112 3.55e-07

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 50.28  E-value: 3.55e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  25 YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQlAPETS---IIILTGHSSKEVAIDALRGHADDYME 101
Cdd:PRK09581   27 YTVLTASSGAEAIAICER-EQPDIILLDVMMPGMDGFEVCRRLKS-DPATThipVVMVTALDDPEDRVRGLEAGADDFLT 104

                          90
                  ....*....|....*
gi 1482993591 102 KPID----VNRIKNL 112
Cdd:PRK09581  105 KPINdvalFARVKSL 119
PRK10610 PRK10610
chemotaxis protein CheY;
6-118 3.57e-07

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 48.05  E-value: 3.57e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   6 LLVDDDKHFREIFRYYLNDY---IIIEASYGRDALNILKKPHLiDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL--T 80
Cdd:PRK10610    9 LVVDDFSTMRRIVRNLLKELgfnNVEEAEDGVDALNKLQAGGF-GFVISDWNMPNMDGLELLKTIRADGAMSALPVLmvT 87

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILE 118
Cdd:PRK10610   88 AEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFE 125
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 5-103 4.09e-07

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: 47.37  E-value: 4.09e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKP--------HLIDLIVLDQMLPDVRGTELLHQMKQlAPET 74
Cdd:cd19924     1 ILVVDDSPTARKQLRDLLKNlgFEIAEAVDGEEALNKLENLakegndlsKELDLIITDIEMPKMDGYELTFELRD-DPRL 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1482993591  75 SIIILTGHSSKEVAIDALRGH---ADDYMEKP 103
Cdd:cd19924    80 ANIPVILNSSLSGEFSRARGKkvgADAYLAKF 111
PRK09978 PRK09978
DNA-binding transcriptional regulator GadX; Provisional
 151-232 4.37e-07

DNA-binding transcriptional regulator GadX; Provisional


Pssm-ID: 137624 [Multi-domain]  Cd Length: 274  Bit Score: 49.54  E-value: 4.37e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 151 SLKEVAQALCLSPKYLSRIFKEStGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTE 230
Cdd:PRK09978  160 TLARIASELLMSPSLLKKKLREE-ETSYSQLLTECRMQRALQLIVIHGFSIKRVAVSCGYHSVSYFIYVFRNYYGMTPTE 238


                  ..
gi 1482993591 231 YR 232
Cdd:PRK09978  239 YQ 240
PRK11697 PRK11697
two-component system response regulator BtsR;
4-116 5.74e-07

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 49.07  E-value: 5.74e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNIL--KKPhliDLIVLD-QMlPDVRGTELLhQMkqLAPET-- 74
Cdd:PRK11697    3 KVLIVDDEPLAREELRELLQEEgdieIVGECSNAIEAIGAIhrLKP---DVVFLDiQM-PRISGLELV-GM--LDPEHmp 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1482993591  75 SIIILTGHSskEVAIDALRGHADDYMEKPIDVNRIKNLIQKI 116
Cdd:PRK11697   76 YIVFVTAFD--EYAIKAFEEHAFDYLLKPIDPARLAKTLARL 115
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 3-115 7.80e-07

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: 46.76  E-value: 7.80e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   3 FTILLVDDDKHFREIFRYYLNDYI---IIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:cd17593     1 MKVLICDDSSMARKQLARALPADWdveITFAENGEEALEILRE-GRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVV 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQK 115
Cdd:cd17593    80 SGDVQPEAKERVLELGALAFLKKPFDPEKLAQLLEE 115
PRK15186 PRK15186
AraC family transcriptional regulator; Provisional
 151-231 1.55e-06

AraC family transcriptional regulator; Provisional


Pssm-ID: 185108 [Multi-domain]  Cd Length: 291  Bit Score: 48.14  E-value: 1.55e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 151 SLKEVAQALCLSPKYLSRIFKESTgKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTE 230
Cdd:PRK15186  199 ALKDISDSLYMSCSTLKRKLKQEN-TSFSEVYLNARMNKATKLLRNSEYNITRVAYMCGYDSASYFTCVFKKHFKTTPSE 277


                  .
gi 1482993591 231 Y 231
Cdd:PRK15186  278 F 278
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 5-114 3.68e-06

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: 44.68  E-value: 3.68e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILK--KPhliDLIVLDQMLPDVRGTELLHQMKQLApETSIIILT 80
Cdd:cd17622     3 ILLVEDDPKLARLIADFLesHGFNVVVEHRGDRALEVIAreKP---DAVLLDIMLPGIDGLTLCRDLRPKY-QGPILLLT 78

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKPID----VNRIKNLIQ 114
Cdd:cd17622    79 ALDSDIDHILGLELGADDYVVKPVEpavlLARLRALLR 116
psREC_PRR cd17582
pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...
 5-103 3.91e-06

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


Pssm-ID: 381120 [Multi-domain]  Cd Length: 104  Bit Score: 44.31  E-value: 3.91e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILK-KPHLIDLIVLDQMLPDVRGTELL-----HQMKQLAPetsI 76
Cdd:cd17582     1 VLLVENDDSTRQIVTALLRKcsYEVTAASDGLQAWDVLEdEQNEIDLILTEVDLPVSSGFKLLsyimrHKICKNIP---V 77

                          90       100
                  ....*....|....*....|....*..
gi 1482993591  77 IILTGHSSKEVAIDALRGHADDYMEKP 103
Cdd:cd17582    78 IMMSSQDSVGVVFKCLSKGAADYLVKP 104
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 4-115 5.39e-06

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


Pssm-ID: 381086 [Multi-domain]  Cd Length: 123  Bit Score: 44.35  E-value: 5.39e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLNDYI---IIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILT 80
Cdd:cd17530     2 RVLVLDDDPFQCMMAATILEDLGpgnVDEADDGREALVILLCNA-PDIIICDLKMPDMDGIEFLRHLAESHSNAAVILMS 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1482993591  81 GHSS--KEVAIDALRGHADDYM---EKPIDVNRIKNLIQK 115
Cdd:cd17530    81 GLDGgiLESAETLAGANGLNLLgtlSKPFSPEELTELLTK 120
PRK11173 PRK11173
two-component response regulator; Provisional
 5-198 5.84e-06

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 46.16  E-value: 5.84e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDD----KHFREIFRyyLNDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLApETSIIILT 80
Cdd:PRK11173    6 ILIVEDElvtrNTLKSIFE--AEGYDVFEATDGAEMHQILSE-NDINLVIMDINLPGKNGLLLARELREQA-NVALMFLT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKPIDVN----RIKNLIQKILenkifgdesLGNDVPGKVELAKSY------IERNSQKMV 150
Cdd:PRK11173   82 GRDNEVDKILGLEIGADDYITKPFNPReltiRARNLLSRTM---------NLGTVSEERRSVESYkfngweLDINSRSLI 152

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1482993591 151 SLKEVAQALCLSPKYLSRIFKESTGKNFThfRLEVKMEMAKNLLKATD 198
Cdd:PRK11173  153 SPDGEQYKLPRSEFRAMLHFCENPGKIQS--RAELLKKMTGRELKPHD 198
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 5-116 6.29e-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: 44.00  E-value: 6.29e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILK--KPhliDLIVLDQMLPDVRGTELLHQMKQLApETSIIILT 80
Cdd:cd17626     3 ILVVDDDAALAEMIGIVLRGegFDPAFCGDGTQALAAFRevRP---DLVLLDLMLPGIDGIEVCRQIRAES-GVPIVMLT 78

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKPIdvnRIKNLIQKI 116
Cdd:cd17626    79 AKSDTVDVVLGLESGADDYVAKPF---KPKELVARI 111
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 5-115 6.57e-06

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 45.69  E-value: 6.57e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREifryYLNDYIIiEASYGRD-ALNILKKPHLI-----DLIVLDQMLPDVRGTELLHQMKQLAPETSIII 78
Cdd:PRK09836    3 LLIVEDEKKTGE----YLTKGLT-EAGFVVDlADNGLNGYHLAmtgdyDLIILDIMLPDVNGWDIVRMLRSANKGMPILL 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPID----VNRIKNLIQK 115
Cdd:PRK09836   78 LTALGTIEHRVKGLELGADDYLVKPFAfaelLARVRTLLRR 118
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 27-113 7.34e-06

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 46.77  E-value: 7.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  27 IIEASYGRDALNILKKPHLiDLIVLD-QMlPD---VRGTELLHQMKQLApETSIIILTGHsskevAIDALRGH-----AD 97
Cdd:PRK11107  694 VVLCDSGHQAVEQAKQRPF-DLILMDiQM-PGmdgIRACELIRQLPHNQ-NTPIIAVTAH-----AMAGERERllsagMD 765

                          90
                  ....*....|....*.
gi 1482993591  98 DYMEKPIDVNRIKNLI 113
Cdd:PRK11107  766 DYLAKPIDEAMLKQVL 781
PRK10693 PRK10693
two-component system response regulator RssB;
29-110 1.28e-05

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 45.37  E-value: 1.28e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  29 EASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHSS-KEVAiDALRGHADDYMEKPI-DV 106
Cdd:PRK10693    2 LAANGVDALELLGGFT-PDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENmADIA-KALRLGVQDVLLKPVkDL 79


                  ....
gi 1482993591 107 NRIK 110
Cdd:PRK10693   80 NRLR 83
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 5-117 1.56e-05

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: 43.11  E-value: 1.56e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYL---NDYIII-EASYGRDALNILK--KPhliDLIVLDQMLPDVRGTELLHQMKQLAPETSIII 78
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIeldPDFTVVgEASSGEEGIELAErlDP---DLILLDLNMKGMSGLDTLKALREEGVSARIVI 77

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:cd19931    78 LTVSDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAA 116
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 5-103 1.57e-05

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


Pssm-ID: 381163 [Multi-domain]  Cd Length: 99  Bit Score: 42.43  E-value: 1.57e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYL--NDYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLApETSIIILTgh 82
Cdd:cd19936     1 IALVDDDRNILTSVSMALeaEGFSVETYTDGASALDGLNA-RPPDLAILDIKMPRMDGMELLQRLRQKS-TLPVIFLT-- 76

                          90       100
                  ....*....|....*....|....
gi 1482993591  83 sSKEVAID---ALRGHADDYMEKP 103
Cdd:cd19936    77 -SKDDEIDevfGLRMGADDYITKP 99
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
26-167 1.84e-05

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 44.48  E-value: 1.84e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  26 IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHSSKEVAIDALRGHADDYMEKPID 105
Cdd:PRK09935   31 IVLKTDDYRITIDYLRT-RPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSKCND 109

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1482993591 106 VNRIKNLIQKILEN-KIFGDESLG---NDVPGKVELA-------KSYIERNSQKMVSLKEVAQALCLSPKYLS 167
Cdd:PRK09935  110 QNDIFHAVQMILSGyTFFPSETLNyikSNKCSTNSSTdtvlsnrEVTILRYLVSGLSNKEIADQLLLSNKTVS 182
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 47-103 2.25e-05

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


Pssm-ID: 381155 [Multi-domain]  Cd Length: 100  Bit Score: 42.11  E-value: 2.25e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1482993591  47 DLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHSSKEVAIDALRGHADDYMEKP 103
Cdd:cd19928    44 DLVITDVVMPDENGLDLIPRIKKARPDLPIIVMSAQNTLMTAVKAAERGAFEYLPKP 100
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 5-103 2.37e-05

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: 42.21  E-value: 2.37e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLN---DYIIIEASY-GRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQ--LAPETSIII 78
Cdd:cd17561     4 VLIADDNREFVQLLEEYLNsqpDMEVVGVAHnGQEALELIEE-KEPDVLLLDIIMPHLDGIGVLEKLRRmrLEKRPKIIM 82

                          90       100
                  ....*....|....*....|....*
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKP 103
Cdd:cd17561    83 LTAFGQEDITQRAVELGASYYILKP 107
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 196-233 2.56e-05

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 40.60  E-value: 2.56e-05
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1482993591 196 ATDYNISQVADKLGYeNPESFIRGFKKVTSLTPTEYRK 233
Cdd:pfam00165   6 STNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK13557 PRK13557
histidine kinase; Provisional
 4-116 3.89e-05

histidine kinase; Provisional


Pssm-ID: 237425 [Multi-domain]  Cd Length: 540  Bit Score: 44.28  E-value: 3.89e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKPHLIDLIVLDQMLP-DVRGTELLHQMKQLAPETSIIILT 80
Cdd:PRK13557  417 TILIVDDRPDVAELARMILEDfgYRTLVASNGREALEILDSHPEVDLLFTDLIMPgGMNGVMLAREARRRQPKIKVLLTT 496

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1482993591  81 GHSSKEVAIDALRGHADDYMEKPIdvnRIKNLIQKI 116
Cdd:PRK13557  497 GYAEASIERTDAGGSEFDILNKPY---RRAELARRV 529
PRK10371 PRK10371
transcriptional regulator MelR;
140-233 4.27e-05

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 43.65  E-value: 4.27e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 140 SYIERNSQKMVSLKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRG 219
Cdd:PRK10371  198 GFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSSRFYST 277

                          90
                  ....*....|....
gi 1482993591 220 FKKVTSLTPTEYRK 233
Cdd:PRK10371  278 FGKYVGMSPQQYRK 291
PRK15044 PRK15044
transcriptional regulator SirC; Provisional
 151-236 4.43e-05

transcriptional regulator SirC; Provisional


Pssm-ID: 185004 [Multi-domain]  Cd Length: 295  Bit Score: 43.87  E-value: 4.43e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 151 SLKEVAQALCLSPKYLSRIFKeSTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTE 230
Cdd:PRK15044  210 SQAEVAGKLFMSVSSLKRKLA-AEEVSFSKIYLDARMNQAIKLLRMGAGNISQVATMCGYDTPSYFIAIFKRHFKITPLS 288


                  ....*.
gi 1482993591 231 YRKTTD 236
Cdd:PRK15044  289 FMRTMN 294
PRK10336 PRK10336
two-component system response regulator QseB;
5-115 5.04e-05

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 42.96  E-value: 5.04e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLN------DYIIiEASYGRDALniLKKPHliDLIVLDQMLPDVRGTELLHQMKQLAPETSIII 78
Cdd:PRK10336    3 ILLIEDDMLIGDGIKTGLSkmgfsvDWFT-QGRQGKEAL--YSAPY--DAVILDLTLPGMDGRDILREWREKGQREPVLI 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1482993591  79 LTGHSSKEVAIDALRGHADDYMEKP---IDV-NRIKNLIQK 115
Cdd:PRK10336   78 LTARDALAERVEGLRLGADDYLCKPfalIEVaARLEALMRR 118
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 5-115 5.07e-05

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


Pssm-ID: 381166 [Multi-domain]  Cd Length: 116  Bit Score: 41.59  E-value: 5.07e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYL--NDYIIIEASYGRDA-LNILKKPHliDLIVLDQMLPDVRGTELLHQMKQLApETSIIILTG 81
Cdd:cd19939     2 ILIVEDELELARLTRDYLikAGLEVSVFTDGQRAvRRIIDEQP--SLVVLDIMLPGMDGLTVCREVREHS-HVPILMLTA 78

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1482993591  82 HSSKEVAIDALRGHADDYMEKPID----VNRIKNLIQK 115
Cdd:cd19939    79 RTEEMDRVLGLEMGADDYLCKPFSprelLARVRALLRR 116
PRK15479 PRK15479
transcriptional regulator TctD;
48-124 1.65e-04

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 41.63  E-value: 1.65e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  48 LIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHSSKEVAIDALRGHADDYMEKPIDVN----RIKNLIQK----ILEN 119
Cdd:PRK15479   47 LAVLDINMPGMDGLEVLQRLRKRGQTLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEeldaRLRALLRRsagqVQEV 126


                  ....*
gi 1482993591 120 KIFGD 124
Cdd:PRK15479  127 QQLGE 131
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 4-115 1.72e-04

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 41.59  E-value: 1.72e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLN--DYIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLApETSIIILTg 81
Cdd:PRK10710   12 RILIVEDEPKLGQLLIDYLQaaSYATTLLSHGDEVLPYVRQ-TPPDLILLDLMLPGTDGLTLCREIRRFS-DIPIVMVT- 88

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1482993591  82 hsSKEVAIDALRG---HADDYMEKPID----VNRIKNLIQK 115
Cdd:PRK10710   89 --AKIEEIDRLLGleiGADDYICKPYSprevVARVKTILRR 127
PRK10841 PRK10841
two-component system sensor histidine kinase RcsC;
4-80 4.28e-04

two-component system sensor histidine kinase RcsC;


Pssm-ID: 182772 [Multi-domain]  Cd Length: 924  Bit Score: 41.11  E-value: 4.28e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDdkHfrEIFRYYLND------YIIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLHQMKQLAPETSII 77
Cdd:PRK10841  803 MILVVDD--H--PINRRLLADqlgslgYQCKTANDGVDALNVLSKNH-IDIVLTDVNMPNMDGYRLTQRLRQLGLTLPVI 877


                  ...
gi 1482993591  78 ILT 80
Cdd:PRK10841  878 GVT 880
PRK10360 PRK10360
transcriptional regulator UhpA;
4-164 4.49e-04

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 39.96  E-value: 4.49e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   4 TILLVDDDKHFREIFRYYLN---DY-IIIEASYGRDALNILKKPHlIDLIVLDQMLPDVRGTELLhqmKQLAPETSIIIL 79
Cdd:PRK10360    3 TVALIDDHLIVRSGFAQLLGlepDLqVVAEFGSGREALAGLPGRG-VQVCICDISMPDISGLELL---SQLPKGMATIML 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKILENKIFgdesLGNDVPGKVELA---------KSYIERNSQKMv 150
Cdd:PRK10360   79 SVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCY----LTPDIAIKLASGrqdpltkreRQVAEKLAQGM- 153

                         170
                  ....*....|....
gi 1482993591 151 SLKEVAQALCLSPK 164
Cdd:PRK10360  154 AVKEIAAELGLSPK 167
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 142-182 5.40e-04

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 36.75  E-value: 5.40e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1482993591 142 IERNSQKMVSLKEVAQALCLSPKYLSRIFKESTGKNFTHFR 182
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYR 41
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 5-117 5.59e-04

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


Pssm-ID: 381143 [Multi-domain]  Cd Length: 113  Bit Score: 38.42  E-value: 5.59e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLNDYIIiEASYGRDALNIL-----KKPHLIdliVLDQMLPDVRGTELLHQMKQLAPeTSIIIL 79
Cdd:cd18159     1 ILIVEDDETIASLLKKHLEKWGY-EVVLIEDFEDVLeeflqFKPDLV---LLDINLPYFDGFYWCREIRQISN-VPIIFI 75

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:cd18159    76 SSRDDNMDQVMAINMGGDDYITKPFDLDVLLAKIKAIL 113
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
152-232 5.99e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 40.04  E-value: 5.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 152 LKEVAQALCLSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTEY 231
Cdd:PRK13502  195 LDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGFEDSNYFSVVFTRETGMTPSQW 274


                  .
gi 1482993591 232 R 232
Cdd:PRK13502  275 R 275
PRK14084 PRK14084
DNA-binding response regulator;
5-126 6.83e-04

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 39.73  E-value: 6.83e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLNDY----IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILT 80
Cdd:PRK14084    3 ALIVDDEPLARNELTYLLNEIggfeEINEAENVKETLEALLI-NQYDIIFLDINLMDESGIELAAKIQKMKEPPAIIFAT 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1482993591  81 GHSSkeVAIDALRGHADDYMEKPIDVNRIKNLIQKILENKIFGDES 126
Cdd:PRK14084   82 AHDQ--FAVKAFELNATDYILKPFEQKRIEQAVNKVRATKAKDDNN 125
PRK13500 PRK13500
HTH-type transcriptional activator RhaR;
157-232 6.92e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184091 [Multi-domain]  Cd Length: 312  Bit Score: 40.09  E-value: 6.92e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1482993591 157 QALClSPKYLSRIFKESTGKNFTHFRLEVKMEMAKNLLKATDYNISQVADKLGYENPESFIRGFKKVTSLTPTEYR 232
Cdd:PRK13500  231 EASC-SERVLRQQFRQQTGMTINQYLRQVRVCHAQYLLQHSRLLISDISTECGFEDSNYFSVVFTRETGMTPSQWR 305
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 5-104 1.25e-03

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: 37.25  E-value: 1.25e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFRE----IFRYYLNDYIIIEASYGRDALN-ILKKPhlIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:cd17565     1 FYIVDDDKNIIKilsdIIEDDDLGEVVGEADNGAQAYDeILFLQ--PDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMI 78

                          90       100
                  ....*....|....*....|....*
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPI 104
Cdd:cd17565    79 SQVSDKEMIGKAYQAGIEFFINKPI 103
PRK10816 PRK10816
two-component system response regulator PhoP;
5-117 1.67e-03

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 38.57  E-value: 1.67e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGH 82
Cdd:PRK10816    3 VLVVEDNALLRHHLKVQLQDagHQVDAAEDAKEADYYLNE-HLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTAR 81

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1482993591  83 SSKEVAIDALRGHADDYMEKPIDVNRIKNLIQKIL 117
Cdd:PRK10816   82 ESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALM 116
PRK09940 PRK09940
transcriptional regulator YdeO; Provisional
 152-232 1.75e-03

transcriptional regulator YdeO; Provisional


Pssm-ID: 182157 [Multi-domain]  Cd Length: 253  Bit Score: 38.53  E-value: 1.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591 152 LKEVAQALCLSPKYLSRIFKESTgKNFTHFRLEVKMEMAKNLLKaTDYNISQVADKLGYENPESFIRGFKKVTSLTP--- 228
Cdd:PRK09940  153 LKDICDCLYISESLLKKKLKQEQ-TTFSQILLDARMQHAKNLIR-VEGSVNKIAEQCGYASTSYFIYAFRKHFGNSPkrv 230


                  ....*
gi 1482993591 229 -TEYR 232
Cdd:PRK09940  231 sKEYR 235
PRK10430 PRK10430
two-component system response regulator DcuR;
5-110 2.22e-03

two-component system response regulator DcuR;


Pssm-ID: 182454 [Multi-domain]  Cd Length: 239  Bit Score: 38.17  E-value: 2.22e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND----YIIIEASYGRDALNILKKPHL-IDLIVLDQMLPDVRGTELLHQMKQLAPETSIIIL 79
Cdd:PRK10430    4 VLIVDDDAMVAELNRRYVAQipgfQCCGTASTLEQAKEIIFNSDTpIDLILLDIYMQQENGLDLLPVLHEAGCKSDVIVI 83

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1482993591  80 TGHSSKEVAIDALRGHADDYMEKPIDVNRIK 110
Cdd:PRK10430   84 SSAADAATIKDSLHYGVVDYLIKPFQASRFE 114
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 5-103 4.54e-03

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


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 35.81  E-value: 4.54e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591   5 ILLVDDDKHFREIFRYYLND--YIIIEASYGRDALNIL--KKPhliDLIVLDQMLPDVRGTELLHQMKQLA--PETSIII 78
Cdd:cd17602     1 VACVDDRPSIQKMIEYFLEKqgFRVVVIDDPLRALTTLlnSKP---DLILIDIDMPDLDGYELCSLLRKSSalKDTPIIM 77

                          90       100
                  ....*....|....*....|....*...
gi 1482993591  79 LTGhssKEVAIDALRGH---ADDYMEKP 103
Cdd:cd17602    78 LTG---KDGLVDRIRAKmagASGYLTKP 102
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 26-118 5.35e-03

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: 35.71  E-value: 5.35e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1482993591  26 IIIEASYGRDALNILKKpHLIDLIVLDQMLPDVRGTELLHQMKQLAPETSIIILTGHSSKEVAIDALRGHADDYMEKPID 105
Cdd:cd19930    26 VVAQASNGQEALRLVLK-HSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTTFGRPGYFRRALAAGVDGYVLKDRP 104

                          90
                  ....*....|...
gi 1482993591 106 VNRIKNLIQKILE 118
Cdd:cd19930   105 IEELADAIRTVHA 117
 
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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