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Conserved domains on  [gi|2574385910|ref|WP_308694768|]
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response regulator [uncultured Sutterella sp.]

Protein Classification

response regulator transcription factor( domain architecture ID 11468274)

response regulator transcription factor with a signal receiver (REC) domain and a LuxR family helix-turn-helix (HTH) domain that may be part of a two-component regulatory system; it receives the signal from the sensor partner, binds DNA upon phosphorylation, and functions as a transcriptional regulator

CATH:  3.40.50.2300|1.10.10.10
Gene Ontology:  GO:0000160|GO:0000156|GO:0003677|GO:0006355
PubMed:  20226724|15808743|10966457
SCOP:  4003632

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 19-214 5.78e-97

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: 283.14  E-value: 5.78e-97
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  19 LVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:COG4566     1 TVYIVDDDEAVRDSLAFLLESAGLRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTGH 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQNRTLIEKLTPREQQVLERIVNGRLNKQIAD 178
Cdd:COG4566    81 GDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNKQIAR 160

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 2574385910 179 DLGISIKTVEAHRASIMDKTGSGTVADLMRVVVKSE 214
Cdd:COG4566   161 ELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
 
Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 19-214 5.78e-97

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: 283.14  E-value: 5.78e-97
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  19 LVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:COG4566     1 TVYIVDDDEAVRDSLAFLLESAGLRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTGH 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQNRTLIEKLTPREQQVLERIVNGRLNKQIAD 178
Cdd:COG4566    81 GDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNKQIAR 160

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 2574385910 179 DLGISIKTVEAHRASIMDKTGSGTVADLMRVVVKSE 214
Cdd:COG4566   161 ELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
fixJ PRK09390
response regulator FixJ; Provisional
 18-214 1.45e-59

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 188.29  E-value: 1.45e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  18 GLVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:PRK09390    4 GVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGLRFGCVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTG 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQNRTLIEKLTPREQQVLERIVNGRLNKQIA 177
Cdd:PRK09390   84 HGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKSEAVAADIRARIASLSERERQVMDGLVAGLSNKVIA 163

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 2574385910 178 DDLGISIKTVEAHRASIMDKTGSGTVADLMRVVVKSE 214
Cdd:PRK09390  164 RDLDISPRTVEVYRANVMTKMQAGSLSELVRMALRAG 200
tetrathio_RR NF040749
tetrathionate respiration response regulator TtrR;
19-208 2.01e-57

tetrathionate respiration response regulator TtrR;


Pssm-ID: 468713 [Multi-domain]  Cd Length: 191  Bit Score: 182.56  E-value: 2.01e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  19 LVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:NF040749    1 MIHLVDDDVAVTDACRFLLESLGYEVQCWNDSEAFLAQADLYQEGVVLLDMRMPGLDGHQVHQALREQGSTLAVVFLTGH 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTlaqnRTLIEKLTPREQQVLERIVNGRLNKQIAD 178
Cdd:NF040749   81 GDVPMAVEQMKLGAVDFLQKPVSAAPLQAALERALAVSAAAFERHQI----RQRYQSLTPKEREIAGLVVQGLMNREIAE 156

                         170       180       190
                  ....*....|....*....|....*....|
gi 2574385910 179 DLGISIKTVEAHRASIMDKTGSGTVADLMR 208
Cdd:NF040749  157 ALNIAVRTVEVHRARVMEKMAAGSLAELVS 186
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 19-133 1.58e-51

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: 164.69  E-value: 1.58e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  19 LVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:cd17537     2 TVYVVDDDEAVRDSLAFLLRSVGLAVKTFTSASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNIPIIFITGH 81

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAM 133
Cdd:cd17537    82 GDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQAL 116
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 20-130 2.38e-31

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: 112.63  E-value: 2.38e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVE 130
Cdd:pfam00072  81 DEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 156-208 5.62e-16

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 70.63  E-value: 5.62e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2574385910  156 LTPREQQVLERIVNGRLNKQIADDLGISIKTVEAHRASIMDKTGSGTVADLMR 208
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVR 56
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 22-156 8.90e-10

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: 58.99  E-value: 8.90e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLEstNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQ-----DHLLRRRIDAPFIFIT 96
Cdd:TIGR02915   3 IVEDDLGLQKQLKWSFA--DYELAVAADRESAIALVRRHEPAVVTLDLGLPPDADGASEglaalQQILAIAPDTKVIVIT 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAK-ELFQRRQTLAQNRTLIEKL 156
Cdd:TIGR02915  81 GNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDRAFHLYTlETENRRLQSALGGTALRGL 141
 
Name Accession Description Interval E-value
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 19-214 5.78e-97

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: 283.14  E-value: 5.78e-97
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  19 LVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:COG4566     1 TVYIVDDDEAVRDSLAFLLESAGLRVETFASAEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTGH 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQNRTLIEKLTPREQQVLERIVNGRLNKQIAD 178
Cdd:COG4566    81 GDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNKQIAR 160

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 2574385910 179 DLGISIKTVEAHRASIMDKTGSGTVADLMRVVVKSE 214
Cdd:COG4566   161 ELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
fixJ PRK09390
response regulator FixJ; Provisional
 18-214 1.45e-59

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 188.29  E-value: 1.45e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  18 GLVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:PRK09390    4 GVVHVVDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGLRFGCVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTG 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQNRTLIEKLTPREQQVLERIVNGRLNKQIA 177
Cdd:PRK09390   84 HGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKSEAVAADIRARIASLSERERQVMDGLVAGLSNKVIA 163

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 2574385910 178 DDLGISIKTVEAHRASIMDKTGSGTVADLMRVVVKSE 214
Cdd:PRK09390  164 RDLDISPRTVEVYRANVMTKMQAGSLSELVRMALRAG 200
tetrathio_RR NF040749
tetrathionate respiration response regulator TtrR;
19-208 2.01e-57

tetrathionate respiration response regulator TtrR;


Pssm-ID: 468713 [Multi-domain]  Cd Length: 191  Bit Score: 182.56  E-value: 2.01e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  19 LVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:NF040749    1 MIHLVDDDVAVTDACRFLLESLGYEVQCWNDSEAFLAQADLYQEGVVLLDMRMPGLDGHQVHQALREQGSTLAVVFLTGH 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTlaqnRTLIEKLTPREQQVLERIVNGRLNKQIAD 178
Cdd:NF040749   81 GDVPMAVEQMKLGAVDFLQKPVSAAPLQAALERALAVSAAAFERHQI----RQRYQSLTPKEREIAGLVVQGLMNREIAE 156

                         170       180       190
                  ....*....|....*....|....*....|
gi 2574385910 179 DLGISIKTVEAHRASIMDKTGSGTVADLMR 208
Cdd:NF040749  157 ALNIAVRTVEVHRARVMEKMAAGSLAELVS 186
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 19-133 1.58e-51

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: 164.69  E-value: 1.58e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  19 LVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:cd17537     2 TVYVVDDDEAVRDSLAFLLRSVGLAVKTFTSASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNIPIIFITGH 81

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAM 133
Cdd:cd17537    82 GDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQAL 116
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 20-156 4.88e-44

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: 146.10  E-value: 4.88e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd17549     1 VLLVDDDADVREALQQTLELAGFRVRAFADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELDPDLPVILITGHG 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKtakelfQRRQTLaQNRTLIEKL 156
Cdd:cd17549    81 DVPMAVEAMRAGAYDFLEKPFDPERLLDVVRRALE------KRRLVL-ENRRLRQQL 130
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 20-167 1.61e-37

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: 137.02  E-value: 1.61e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:COG2204     5 ILVVDDDPDIRRLLKELLERAGYEVETAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVILLTGYG 84

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMktakELFQRRQTLAQNRTLIEKlTPREQQVLERI 167
Cdd:COG2204    85 DVETAVEAIKAGAFDYLTKPFDLEELLAAVERAL----ERRRLRRENAEDSGLIGR-SPAMQEVRRLI 147
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 20-130 2.38e-31

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: 112.63  E-value: 2.38e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAHG 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVE 130
Cdd:pfam00072  81 DEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 22-119 1.27e-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: 105.39  E-value: 1.27e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGDV 101
Cdd:cd00156     2 IVDDDPAIRELLKSLLEREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKADE 81

                          90
                  ....*....|....*...
gi 2574385910 102 PQAVQAFKKGAMDFIQKP 119
Cdd:cd00156    82 EDAVRALELGADDYLVKP 99
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 20-150 2.98e-28

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: 107.94  E-value: 2.98e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDV--QDHLLRRRIDAPFIFITG 97
Cdd:COG3437     9 VLIVDDDPENLELLRQLLRTLGYDVVTAESGEEALELLLEAPPDLILLDVRMPGMDGFELlrLLRADPSTRDIPVIFLTA 88

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQNR 150
Cdd:COG3437    89 LADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRLQRELDDLVLYLK 141
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 20-132 1.07e-27

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: 103.51  E-value: 1.07e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDadvrESIKWLLE----STNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFI 95
Cdd:cd19919     3 VWIVDDD----SSIRWVLEralaGAGLTVTSFENAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIM 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2574385910  96 TGHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERA 132
Cdd:cd19919    79 TAHSDLDSAVSAYQGGAFEYLPKPFDIDEAVALVERA 115
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 20-165 3.32e-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: 101.96  E-value: 3.32e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:COG0745     4 ILVVEDDPDIRELLADALEREGYEVDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIMLTARD 83

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQL----QKLVERAMKTAKEL-----FQRRQTLAQNRTLieKLTPREQQVLE 165
Cdd:COG0745    84 DEEDRVRGLEAGADDYLTKPFDPEELlariRALLRRRAAEVLRVgdlldLAAREVTRDGEPV--ELTPKEFRLLE 156
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 20-134 3.69e-26

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: 99.11  E-value: 3.69e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd17550     1 ILIVDDEEDIRESLSGILEDEGYEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMISGHG 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMK 134
Cdd:cd17550    81 TIETAVKATKLGAYDFIEKPLSLDRLLLTIERALE 115
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 22-184 1.41e-25

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: 99.60  E-value: 1.41e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHL--LRRRIDAPFIFITGHG 99
Cdd:COG3706     6 VVDDDPTNRKLLRRLLEAAGYEVVEAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLraDPRTADIPIIFLTALD 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFqrrqtlaqnrTLIEKLTPREQ--QVLERIVNgRLNKQIA 177
Cdd:COG3706    86 DEEDRARALEAGADDYLTKPFDPEELLARVDLVARYGGEEF----------AILLPGTDLEGalAVAERIRE-AVAELPS 154


                  ....*..
gi 2574385910 178 DDLGISI 184
Cdd:COG3706   155 LRVTVSI 161
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 20-138 1.54e-25

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: 98.00  E-value: 1.54e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHL--LRRRIDAPFIFITG 97
Cdd:COG0784     8 ILVVDDNPDNRELLRRLLERLGYEVTTAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIraLPRLPDIPIIALTA 87

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKE 138
Cdd:COG0784    88 YADEEDRERALEAGADDYLTKPVDPEELLEALRRLLARASA 128
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 20-119 1.38e-24

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: 94.84  E-value: 1.38e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTN--YRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:COG4753     2 VLIVDDEPLIREGLKRILEWEAgfEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILSG 81

                          90       100
                  ....*....|....*....|..
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKP 119
Cdd:COG4753    82 YSDFEYAQEAIKLGADDYLLKP 103
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 20-132 7.59e-24

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: 93.42  E-value: 7.59e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd17555     3 ILVIDDDEVVRESIAAYLEDSGFQVLQAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIVVSGAG 82

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQ-LQKLVERA 132
Cdd:cd17555    83 VMSDAVEALRLGAWDYLTKPIEDLAvLEHAVRRA 116
PRK15369 PRK15369
two component system response regulator;
16-207 3.84e-23

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 94.38  E-value: 3.84e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  16 KNGLVYVIDDDADVRESIKWLLES-TNYR-VEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFI 93
Cdd:PRK15369    2 KNYKILLVDDHELIINGIKNMLAPyPRYKiVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNIL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  94 FITGHGDVPQAVQAFKKGAMDFIQKpfQQPQlQKLVErAMKTAK----------ELFQRRQTLAQNRTLIEKLTPREQQV 163
Cdd:PRK15369   82 VLTARQEEHMASRTLAAGALGYVLK--KSPQ-QILLA-AIQTVAvgkryidpalNREAILALLNADDTNPPLLTPRERQI 157

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 2574385910 164 LERIVNGRLNKQIADDLGISIKTVEAHRASIMDKTGSGTVADLM 207
Cdd:PRK15369  158 LKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELL 201
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 20-139 9.33e-22

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 88.49  E-value: 9.33e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNY--RVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:COG4565     6 VLIVEDDPMVAELLRRYLERLPGfeVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDVIVITA 85

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKEL 139
Cdd:COG4565    86 ARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLL 127
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 20-217 1.26e-21

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: 88.03  E-value: 1.26e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLEST-NYRV-EDYESGETFIAQFNENVPSVILCDLRMPGMSGSDvqdhlLRRRIdapfifitg 97
Cdd:COG2197     4 VLIVDDHPLVREGLRALLEAEpDIEVvGEAADGEEALELLEELRPDVVLLDIRMPGMDGLE-----ALRRL--------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  98 hgdvpqavqafkkgamdfiqkpfqqpqlqklveramktakelfqrrqtlaqnrtliekLTPREQQVLERIVNGRLNKQIA 177
Cdd:COG2197    70 ----------------------------------------------------------LTPREREVLRLLAEGLSNKEIA 91

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 2574385910 178 DDLGISIKTVEAHRASIMDKTGSGTVADLMRVVVKSELYP 217
Cdd:COG2197    92 ERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLLD 131
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 20-137 2.11e-21

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: 86.87  E-value: 2.11e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd17572     1 VLLVEDSPSLAALYQEYLSDEGYKVTHVETGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVITAHG 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAK 137
Cdd:cd17572    81 SVDIAVEAMRLGAYDFLEKPFDADRLRVTVRNALKHRK 118
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 20-167 4.76e-21

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 89.11  E-value: 4.76e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLEST-NYRVED-YESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:COG3279     4 ILIVDDEPLARERLERLLEKYpDLEVVGeASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIFTTA 83

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  98 HGDVpqAVQAFKKGAMDFIQKPFQQPQLQKLVERamktAKELFQRRQTLAQNRTLIEKLTPREQQVLERI 167
Cdd:COG3279    84 YDEY--ALEAFEVNAVDYLLKPIDEERLAKALEK----AKERLEAKAAAEASPEEKDRIFVKSGGKLVKI 147
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 18-174 5.86e-21

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 92.24  E-value: 5.86e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  18 GLVYVIDDDAdvreSIKWLLE----STNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFI 93
Cdd:PRK10923    4 GIVWVVDDDS----SIRWVLEralaGAGLTCTTFENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  94 FITGHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQ-RRQTLAQNRTLIEKLTPREQQVLeRIVnGRL 172
Cdd:PRK10923   80 IMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISHYQEQQQpRNIQVNGPTTDIIGEAPAMQDVF-RII-GRL 157


                  ..
gi 2574385910 173 NK 174
Cdd:PRK10923  158 SR 159
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 22-119 6.10e-20

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: 82.46  E-value: 6.10e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGDV 101
Cdd:cd17574     2 VVEDDEEIAELLSDYLEKEGYEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAKDEE 81

                          90
                  ....*....|....*...
gi 2574385910 102 PQAVQAFKKGAMDFIQKP 119
Cdd:cd17574    82 EDKVLGLELGADDYITKP 99
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 20-134 6.14e-20

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: 83.16  E-value: 6.14e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVE---DYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFIT 96
Cdd:cd17536     1 VLIVDDEPLIREGLKKLIDWEELGFEvvgEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIILS 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMK 134
Cdd:cd17536    81 GYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 20-150 7.92e-20

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: 84.58  E-value: 7.92e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:COG4567     7 LLLVDDDEAFARVLARALERRGFEVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDARIVVLTGYA 86

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQNR 150
Cdd:COG4567    87 SIATAVEAIKLGADDYLAKPADADDLLAALERAEGDAPAPPENPMSLDRLE 137
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
20-161 3.82e-18

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 83.74  E-value: 3.82e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:PRK11361    7 ILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTAYA 86

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMktakelfQRRQTLAQNRTLIEKLTPREQ 161
Cdd:PRK11361   87 EVETAVEALRCGAFDYVIKPFDLDELNLIVQRAL-------QLQSMKKEIRHLHQALSTSWQ 141
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 20-199 1.23e-16

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 76.61  E-value: 1.23e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLE-STNYR-VEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:PRK10651    9 ILLIDDHPMLRTGVKQLISmAPDITvVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERA----MKTAKELFQ------RRQTLAQNRTlIEKLTPREQQVLERI 167
Cdd:PRK10651   89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAaageMVLSEALTPvlaaslRANRATTERD-VNQLTPRERDILKLI 167

                         170       180       190
                  ....*....|....*....|....*....|..
gi 2574385910 168 VNGRLNKQIADDLGISIKTVEAHRASIMDKTG 199
Cdd:PRK10651  168 AQGLPNKMIARRLDITESTVKVHVKHMLKKMK 199
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 20-118 2.78e-16

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: 73.32  E-value: 2.78e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTN--YRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPdiEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                          90       100
                  ....*....|....*....|.
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQK 118
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLK 101
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 156-208 5.62e-16

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 70.63  E-value: 5.62e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2574385910  156 LTPREQQVLERIVNGRLNKQIADDLGISIKTVEAHRASIMDKTGSGTVADLMR 208
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVR 56
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 20-135 5.75e-16

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: 72.19  E-value: 5.75e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYR--VEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDhLLRRRIDAPFI-FIT 96
Cdd:cd17532     1 ALIVDDEPLAREELRYLLEEHPDIeiVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAK-KLSKLAKPPLIvFVT 79

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2574385910  97 GHGDVpqAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKT 135
Cdd:cd17532    80 AYDEY--AVEAFELNAVDYLLKPFSEERLAEALAKLRKR 116
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 20-120 1.22e-15

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: 71.00  E-value: 1.22e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDV-----QDHLLRrriDAPFIF 94
Cdd:cd19920     1 ILIVDDVPDNLRLLSELLRAAGYRVLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVcrrlkADPATR---HIPVIF 77

                          90       100
                  ....*....|....*....|....*.
gi 2574385910  95 ITGHGDVPQAVQAFKKGAMDFIQKPF 120
Cdd:cd19920    78 LTALTDTEDKVKGFELGAVDYITKPF 103
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 20-119 1.61e-15

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: 70.93  E-value: 1.61e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd17563     3 LLLVDDDEVFAERLARALERRGFEVETAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVLTGYA 82

                          90       100
                  ....*....|....*....|
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKP 119
Cdd:cd17563    83 SIATAVEAIKLGADDYLAKP 102
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 20-119 1.84e-15

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: 70.55  E-value: 1.84e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHlLRRRIDAPFIFITGHG 99
Cdd:cd19936     1 IALVDDDRNILTSVSMALEAEGFSVETYTDGASALDGLNARPPDLAILDIKMPRMDGMELLQR-LRQKSTLPVIFLTSKD 79

                          90       100
                  ....*....|....*....|
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKP 119
Cdd:cd19936    80 DEIDEVFGLRMGADDYITKP 99
PRK10360 PRK10360
transcriptional regulator UhpA;
20-208 8.22e-15

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 71.16  E-value: 8.22e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLL--ESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRrriDAPFIFITG 97
Cdd:PRK10360    4 VALIDDHLIVRSGFAQLLglEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIMLSV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  98 HgDVPQAV-QAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQR-RQTLAQNRTliEKLTPREQQVLERIVNGRLNKQ 175
Cdd:PRK10360   81 H-DSPALVeQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDiAIKLASGRQ--DPLTKRERQVAEKLAQGMAVKE 157

                         170       180       190
                  ....*....|....*....|....*....|...
gi 2574385910 176 IADDLGISIKTVEAHRASIMDKTGSGTVADLMR 208
Cdd:PRK10360  158 IAAELGLSPKTVHVHRANLMEKLGVSNDVELAR 190
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 22-134 9.47e-15

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: 68.97  E-value: 9.47e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDvqdhLLRR-RIDAPF---IFITG 97
Cdd:cd17569     5 LVDDEPNILKALKRLLRREGYEVLTATSGEEALEILKQEPVDVVISDQRMPGMDGAE----LLKRvRERYPDtvrILLTG 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2574385910  98 HGDVPQAVQAFKKGAMD-FIQKPFQQPQLQKLVERAMK 134
Cdd:cd17569    81 YADLDAAIEAINEGEIYrFLTKPWDDEELKETIRQALE 118
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 20-155 1.18e-14

Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding antiterminator (ANTAR) domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 442921 [Multi-domain]  Cd Length: 194  Bit Score: 70.76  E-value: 1.18e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDY-ESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIdAPFIFITGH 98
Cdd:COG3707     6 VLVVDDEPLRRADLREGLREAGYEVVAEaADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERP-APVILLTAY 84

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQ------NRTLIEK 155
Cdd:COG3707    85 SDPELIERALEAGVSAYLVKPLDPEDLLPALELALARFRELRALRRELAKlrealeERKLIER 147
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 20-133 1.88e-14

phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; This groups includes a modulated diguanylate cyclase containing a PAS sensor domain from Desulfovibrio desulfuricans G20. Members of this group contain N-terminal REC domains and various output domains including the GGDEF, histidine kinase, and helix-turn-helix (HTH) DNA binding domains. Also included in this family is Mycobacterium tuberculosis PdtaR, a transcriptional antiterminator that contains a REC domain and an ANTAR RNA-binding output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381089 [Multi-domain]  Cd Length: 117  Bit Score: 68.20  E-value: 1.88e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDY-ESGETFIAQFNENVPSVILCDLRMPG-MSGSDVQdHLLRRRIDAPFIFITG 97
Cdd:cd17534     3 ILIVEDEAIIALDLKEILESLGYEVVGIaDSGEEAIELAEENKPDLILMDINLKGdMDGIEAA-REIREKFDIPVIFLTA 81

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2574385910  98 HGDvpQAV--QAFKKGAMDFIQKPFQQPQLQKLVERAM 133
Cdd:cd17534    82 YSD--EETleRAKETNPYGYLVKPFNERELKAAIELAL 117
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
131-215 2.03e-14

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 70.17  E-value: 2.03e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910 131 RAMKTAKELFQRRQTLAQNRTLIEKLTPREQQVLERIVNGRLNKQIADDLGISIKTVEAHRASIMDKTGSGTVADLMRVV 210
Cdd:COG2771   103 ALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALA 182


                  ....*
gi 2574385910 211 VKSEL 215
Cdd:COG2771   183 LRLGL 187
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 156-206 2.40e-14

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


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 66.02  E-value: 2.40e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2574385910 156 LTPREQQVLERIVNGRLNKQIADDLGISIKTVEAHRASIMDKTGSGTVADL 206
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQL 51
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
22-207 3.19e-14

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 69.92  E-value: 3.19e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRV-EDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGD 100
Cdd:PRK09958    5 IIDDHPLAIAAIRNLLIKNDIEIlAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAKND 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910 101 VPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAK------ELFQRRQTLAQNRtlIEKLTPREQQVLERIVNGRLNK 174
Cdd:PRK09958   85 HFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCyfpfslNRFVGSLTSDQQK--LDSLSKQEISVMRYILDGKDNN 162

                         170       180       190
                  ....*....|....*....|....*....|...
gi 2574385910 175 QIADDLGISIKTVEAHRASIMDKTGSGTVADLM 207
Cdd:PRK09958  163 DIAEKMFISNKTVSTYKSRLMEKLECKSLMDLY 195
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
20-197 3.27e-14

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 69.88  E-value: 3.27e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLES-TNYRV-EDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITg 97
Cdd:PRK10403    9 VLIVDDHPLMRRGVRQLLELdPGFEVvAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILT- 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  98 HGDVPQAVQAF-KKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQNRTLIEK-------LTPREQQVLERIVN 169
Cdd:PRK10403   88 VSDASSDVFALiDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLREREMFGAeedpfsvLTERELDVLHELAQ 167

                         170       180
                  ....*....|....*....|....*...
gi 2574385910 170 GRLNKQIADDLGISIKTVEAHRASIMDK 197
Cdd:PRK10403  168 GLSNKQIASVLNISEQTVKVHIRNLLRK 195
GerE pfam00196
Bacterial regulatory proteins, luxR family;
156-210 3.82e-14

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 65.68  E-value: 3.82e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2574385910 156 LTPREQQVLERIVNGRLNKQIADDLGISIKTVEAHRASIMDKTGSGTVADLMRVV 210
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 22-120 4.65e-14

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


Pssm-ID: 381093 [Multi-domain]  Cd Length: 104  Bit Score: 66.75  E-value: 4.65e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDV-----QDHLLRrriDAPFIFIT 96
Cdd:cd17538     4 VVDDEPANRELLEALLSAEGYEVLTADSGQEALALAEEELPDLILLDVMMPGMDGFEVcrrlkEDPETR---HIPVIMIT 80

                          90       100
                  ....*....|....*....|....
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPF 120
Cdd:cd17538    81 ALDDREDRIRGLEAGADDFLSKPI 104
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 153-208 9.87e-14

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


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 64.98  E-value: 9.87e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2574385910 153 IEKLTPREQQVLERIVNGRLNKQIADDLGISIKTVEAHRASIMDKTGSGTVADLMR 208
Cdd:COG5905    10 PSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVV 65
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 20-120 1.26e-13

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: 66.12  E-value: 1.26e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRI--DAPFIFITG 97
Cdd:cd17618     3 ILIVEDEPAIREMIAFNLERAGFDVVEAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRDEMtrDIPIIMLTA 82

                          90       100
                  ....*....|....*....|...
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPF 120
Cdd:cd17618    83 RGEEEDKVRGLEAGADDYITKPF 105
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
20-134 1.51e-13

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 68.59  E-value: 1.51e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRI--DAPFIFITG 97
Cdd:PRK10161    5 ILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKRESMtrDIPVVMLTA 84

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMK 134
Cdd:PRK10161   85 RGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 21-120 3.08e-13

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: 64.99  E-value: 3.08e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  21 YVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLR--RRIDAPFIFITGH 98
Cdd:cd19937     1 LVVDDEEDIVELLKYNLEKEGYEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRSdpKTSSIPIIMLTAK 80

                          90       100
                  ....*....|....*....|..
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPF 120
Cdd:cd19937    81 GEEFDKVLGLELGADDYITKPF 102
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 20-131 3.53e-13

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: 64.87  E-value: 3.53e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESI-KWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGh 98
Cdd:cd17593     3 VLICDDSSMARKQLaRALPADWDVEITFAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVVSG- 81

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2574385910  99 gDV-PQAVQAFKK-GAMDFIQKPFQQPQLQKLVER 131
Cdd:cd17593    82 -DVqPEAKERVLElGALAFLKKPFDPEKLAQLLEE 115
orf27 CHL00148
Ycf27; Reviewed
 13-120 3.65e-13

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 67.43  E-value: 3.65e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  13 GENKNGLVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLlRRRIDAPF 92
Cdd:CHL00148    2 MENSKEKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEI-RKESDVPI 80

                          90       100
                  ....*....|....*....|....*...
gi 2574385910  93 IFITGHGDVPQAVQAFKKGAMDFIQKPF 120
Cdd:CHL00148   81 IMLTALGDVSDRITGLELGADDYVVKPF 108
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
20-167 9.47e-13

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 67.75  E-value: 9.47e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:PRK10365    8 ILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTAYS 87

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAKELFQRRQTLAQNRTLIEKLTPREQQVLERI 167
Cdd:PRK10365   88 SVETAVEALKTGALDYLIKPLDFDNLQATLEKALAHTHSIDAETPAVTASQFGMVGKSPAMQHLLSEI 155
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 20-119 1.16e-12

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: 62.57  E-value: 1.16e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQdHLLRRRIDAPFIFITGHG 99
Cdd:cd17620     1 ILVIEDEPQIRRFLRTALEAHGYRVFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVI-RRLREWSAVPVIVLSARD 79

                          90       100
                  ....*....|....*....|
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKP 119
Cdd:cd17620    80 EESDKIAALDAGADDYLTKP 99
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 20-133 1.18e-12

phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response regulator CheY contains a stand-alone REC domain. Chemotaxis is a behavior known for motile bacteria that directs their movement in response to chemical gradients. CheY is involved in transmitting sensory signals from chemoreceptors to the flagellar motors. Phosphorylated CheY interacts with the flagella switch components FliM and FliY, which causes counterclockwise rotation of the flagella, resulting in smooth swimming. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381097 [Multi-domain]  Cd Length: 117  Bit Score: 63.45  E-value: 1.18e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVED-YESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:cd17542     3 VLIVDDAAFMRMMLKDILTKAGYEVVGeAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMCSAM 82

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAM 133
Cdd:cd17542    83 GQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKVL 117
PRK15115 PRK15115
response regulator GlrR; Provisional
 22-134 6.25e-12

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 65.24  E-value: 6.25e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGDV 101
Cdd:PRK15115   10 LVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIILTAHGSI 89

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2574385910 102 PQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMK 134
Cdd:PRK15115   90 PDAVAATQQGVFSFLTKPVDRDALYKAIDDALE 122
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 20-126 7.03e-12

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: 61.38  E-value: 7.03e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENvPSV--ILCDLRMPGMSGSDVQdHLLRRRIDA---PFIF 94
Cdd:cd17544     3 VLVVDDSATSRNHLRALLRRHNFQVLEAANGQEALEVLEQH-PDIklVITDYNMPEMDGFELV-REIRKKYSRdqlAIIG 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2574385910  95 ITGHGDVPQAVQAFKKGAMDFIQKPFQQPQLQ 126
Cdd:cd17544    81 ISASGDNALSARFIKAGANDFLTKPFLPEEFY 112
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 20-126 9.23e-12

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


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 60.92  E-value: 9.23e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNY-RVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLlrRRIDA----PFIF 94
Cdd:cd17551     3 ILIVDDNPTNLLLLEALLRSAGYlEVVSFTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRL--RALPGledvPIVM 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2574385910  95 ITGHGDVPQAVQAFKKGAMDFIQKPFQQPQLQ 126
Cdd:cd17551    81 ITADTDREVRLRALEAGATDFLTKPFDPVELL 112
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 20-126 9.71e-12

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: 60.72  E-value: 9.71e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGET---FIAQFNENVpSVILCDLRMPGMSGSDVQDHLlRRRIDAPFIFIT 96
Cdd:cd17584     1 VLVVDDDPTCLAILKRMLLRCGYQVTTCTDAEEalsMLRENKDEF-DLVITDVHMPDMDGFEFLELI-RLEMDLPVIMMS 78

                          90       100       110
                  ....*....|....*....|....*....|
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPFQQPQLQ 126
Cdd:cd17584    79 ADGSTSTVMKGLAHGACDYLLKPVSIEDLK 108
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 20-131 1.27e-11

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: 60.44  E-value: 1.27e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd17615     2 VLVVDDEPNITELLSMALRYEGWDVETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLTAKD 81

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFqqpQLQKLVER 131
Cdd:cd17615    82 SVEDRIAGLTAGGDDYVTKPF---SLEEVVAR 110
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 20-132 1.37e-11

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: 60.37  E-value: 1.37e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDAGYVVDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLILTARD 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQ----QPQLQKLVERA 132
Cdd:cd19934    81 SWQDKVEGLDAGADDYLTKPFHieelLARLRALIRRA 117
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 20-72 1.71e-11

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


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 58.35  E-value: 1.71e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2574385910   20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMP 72
Cdd:smart00448   3 ILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 20-99 1.80e-11

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: 59.78  E-value: 1.80e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQdHLLRRR---IDAPFIFIT 96
Cdd:cd17580     1 ILVVDDNEDAAEMLALLLELEGAEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELA-RRLRELpwlANTPAIALT 79


                  ...
gi 2574385910  97 GHG 99
Cdd:cd17580    80 GYG 82
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 20-120 1.86e-11

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: 59.67  E-value: 1.86e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNEN-VPSVILCDLRMPG-MSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:cd18161     1 VLVVEDDPDVRRLTAEVLEDLGYTVLEAASGDEALDLLESGpDIDLLVTDVIMPGgMNGSQLAEEARRRRPDLKVLLTSG 80

                          90       100
                  ....*....|....*....|...
gi 2574385910  98 HgDVPQAVQAFKKGAMDFIQKPF 120
Cdd:cd18161    81 Y-AENAIEGGDLAPGVDVLSKPF 102
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 20-131 1.95e-11

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


Pssm-ID: 381142 [Multi-domain]  Cd Length: 116  Bit Score: 60.09  E-value: 1.95e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLRFEGYEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLTARD 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFqqpQLQKLVER 131
Cdd:cd17627    81 SVSDRVAGLDAGADDYLVKPF---ALEELLAR 109
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 20-120 1.97e-11

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: 60.01  E-value: 1.97e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHlLRRRIDAPFIFITGHG 99
Cdd:cd17623     1 ILLIDDDRELTELLTEYLEMEGFNVRAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKE-LRKTSQVPVLMLTARG 79

                          90       100
                  ....*....|....*....|.
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPF 120
Cdd:cd17623    80 DDIDRILGLELGADDYLPKPF 100
PRK09483 PRK09483
response regulator; Provisional
 20-203 2.09e-11

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 62.05  E-value: 2.09e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTN--YRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:PRK09483    4 VLLVDDHELVRAGIRRILEDIKgiKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIMLTV 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQK---PFQQPQLQKLVERAMK-TAKELFQR---RQTLAQNRTLIEKLTPREQQVLERIVNG 170
Cdd:PRK09483   84 HTENPLPAKVMQAGAAGYLSKgaaPQEVVSAIRSVHSGQRyIASDIAQQmalSQIEPATENPFASLSERELQIMLMITKG 163

                         170       180       190
                  ....*....|....*....|....*....|....
gi 2574385910 171 RLNKQIADDLGISIKTVEAHRASIMDKTG-SGTV 203
Cdd:PRK09483  164 QKVNEISEQLNLSPKTVNSYRYRMFSKLNiSGDV 197
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 22-100 2.54e-11

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: 59.54  E-value: 2.54e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGD 100
Cdd:cd17554     5 VVDDEENIRELYKEELEDEGYEVVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVIICTAYSE 83
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 18-147 2.87e-11

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: 60.07  E-value: 2.87e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  18 GLVYVIDDDADVRESIKWLLEsTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:cd17596     1 PTILVVDDEVRSLEALRRTLE-EDFDVLTAASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVRERWPEVVRIIISG 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2574385910  98 HGDVPQAVQAFKKGAM-DFIQKPFQQPQLQKLVERAMKTaKELFQRRQTLA 147
Cdd:cd17596    80 YTDSEDIIAGINEAGIyQYLTKPWHPDQLLLTVRNAARL-FELQRENERLS 129
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 22-125 3.03e-11

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: 59.16  E-value: 3.03e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGDV 101
Cdd:cd17625     2 VVEDEKDLSEAITKHLKKEGYTVDVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGIETPVLLLTALDAV 81

                          90       100
                  ....*....|....*....|....
gi 2574385910 102 PQAVQAFKKGAMDFIQKPFQQPQL 125
Cdd:cd17625    82 EDRVKGLDLGADDYLPKPFSLAEL 105
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 20-125 3.24e-11

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: 59.41  E-value: 3.24e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQdHLLRRRIDAPFIFITGHG 99
Cdd:cd17626     3 ILVVDDDAALAEMIGIVLRGEGFDPAFCGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVC-RQIRAESGVPIVMLTAKS 81

                          90       100
                  ....*....|....*....|....*.
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQL 125
Cdd:cd17626    82 DTVDVVLGLESGADDYVAKPFKPKEL 107
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 20-120 4.67e-11

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: 58.67  E-value: 4.67e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESG-ETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:cd18160     2 ILLADDEPSVRKFIVTTLKKAGYAVTEAESGaEALEKLQQGKDIDIVVTDIVMPEMDGIELAREARKIDPDVKILFISGG 81

                          90       100
                  ....*....|....*....|..
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPF 120
Cdd:cd18160    82 AAAAPELLSDAVGDNATLKKPF 103
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 20-132 7.30e-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: 58.50  E-value: 7.30e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYR-VEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDvqdhLLRR-RIDA-----PF 92
Cdd:cd19923     3 VLVVDDFSTMRRIIKNLLKELGFNnVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLE----LLKTiRADGalshlPV 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2574385910  93 IFITGHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERA 132
Cdd:cd19923    79 LMVTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKI 118
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 19-131 1.11e-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: 57.84  E-value: 1.11e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  19 LVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQdHLLRRRIDAPFIFITGH 98
Cdd:cd17594     1 HVLVVDDDAAMRHLLILYLRERGFDVTAAADGAEEARLMLHRRVDLVLLDLRLGQESGLDLL-RTIRARSDVPIIIISGD 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2574385910  99 GDVPQA-VQAFKKGAMDFIQKPFqqpQLQKLVER 131
Cdd:cd17594    80 RRDEIDrVVGLELGADDYLAKPF---GLRELLAR 110
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 20-119 1.95e-10

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: 56.78  E-value: 1.95e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd19926     1 VLVVDDEPDIRELLEITLGRMGLDVRSARNVKEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQRLPQTPVAVITAYG 80

                          90       100
                  ....*....|....*....|
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKP 119
Cdd:cd19926    81 SLDTAIEALKAGAFDFLTKP 100
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 20-133 4.90e-10

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: 56.16  E-value: 4.90e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHL--LRRRIDAPFIFITG 97
Cdd:cd17562     3 ILAVDDSASIRQMVSFTLRGAGYEVVEAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELrkLPAYKFTPILMLTT 82

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAM 133
Cdd:cd17562    83 ESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKVL 118
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 20-130 7.12e-10

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: 55.51  E-value: 7.12e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHlLRRRIDAPFIFITGHG 99
Cdd:cd17614     1 ILVVDDEKPISDILKFNLTKEGYEVVTAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCRE-VRKTSNVPIIMLTAKD 79

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVE 130
Cdd:cd17614    80 SEVDKVLGLELGADDYVTKPFSNRELLARVK 110
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 22-133 8.90e-10

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: 55.25  E-value: 8.90e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLEST-NYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDV----QDHLLRRRIdaPFIFIT 96
Cdd:cd17552     6 VIDDEEDIREVVQACLEKLaGWEVLTASSGQEGLEKAATEQPDAILLDVMMPDMDGLATlkklQANPETQSI--PVILLT 83

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAM 133
Cdd:cd17552    84 AKAQPSDRQRFASLGVAGVIAKPFDPLTLAEQIAKLL 120
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 22-156 8.90e-10

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: 58.99  E-value: 8.90e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLEstNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQ-----DHLLRRRIDAPFIFIT 96
Cdd:TIGR02915   3 IVEDDLGLQKQLKWSFA--DYELAVAADRESAIALVRRHEPAVVTLDLGLPPDADGASEglaalQQILAIAPDTKVIVIT 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAK-ELFQRRQTLAQNRTLIEKL 156
Cdd:TIGR02915  81 GNDDRENAVKAIGLGAYDFYQKPIDPDVLKLIVDRAFHLYTlETENRRLQSALGGTALRGL 141
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 20-119 8.92e-10

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: 54.90  E-value: 8.92e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHlLRRRIDAPFIFITGHG 99
Cdd:cd17621     1 VLVVEDEESFSDPLAYLLRKEGFEVTVATDGPAALAEFDRAGADIVLLDLMLPGLSGTEVCRQ-LRARSNVPVIMVTAKD 79

                          90       100
                  ....*....|....*....|
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKP 119
Cdd:cd17621    80 SEIDKVVGLELGADDYVTKP 99
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 20-132 1.61e-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: 54.32  E-value: 1.61e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHlLRRRIDAPFIFITGHG 99
Cdd:cd17619     3 ILIVEDEPVTRATLKSYFEQEGYDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRE-LREQSEVGIILVTGRD 81

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFqqpQLQKLVERA 132
Cdd:cd17619    82 DEVDRIVGLEIGADDYVTKPF---NPRELLVRA 111
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 22-129 2.02e-09

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators similar to Arabidopsis thaliana CKI1 and Escherichia coli RcsC; This family is composed of hybrid sensor histidine kinases/response regulators that are sensor histidine kinases (HKs) fused with a REC domain, similar to the sensor histidine kinase CKI1 from Arabidopsis thaliana, which is involved in multi-step phosphorelay (MSP) signaling that mediates responses to a variety of important stimuli in plants. MSP involves a signal being transferred from HKs via histidine phosphotransfer proteins (AHP1-AHP5) to nuclear response regulators. The CKI1 REC domain specifically interacts with the downstream signaling protein AHP2, AHP3 and AHP5. The plant MSP system has evolved from the prokaryotic two-component system (TCS), which allows organisms to sense and respond to changes in environmental conditions. This family also includes bacterial hybrid sensor HKs such as Escherichia coli RcsC, which is a component of the Rcs signalling pathway that controls a variety of physiological functions like capsule synthesis, cell division, and motility. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381099 [Multi-domain]  Cd Length: 113  Bit Score: 54.01  E-value: 2.02e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDV-----QDHLLRRRIdaPFIFIT 96
Cdd:cd17546     3 VVDDNPVNRKVLKKLLEKLGYEVDVAENGQEALELLKEEPFDLVLMDLQMPVMDGLEAtrrirELEGGGRRT--PIIALT 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLV 129
Cdd:cd17546    81 ANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
20-215 3.54e-09

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 55.65  E-value: 3.54e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIA-QFNENVP-SVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:PRK09935    6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITiDYLRTRPvDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLSS 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVEraMKTAKELFQRRQTL--------AQNRTLIEKLTPREQQVLERIVN 169
Cdd:PRK09935   86 KSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQ--MILSGYTFFPSETLnyiksnkcSTNSSTDTVLSNREVTILRYLVS 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 2574385910 170 GRLNKQIADDLGISIKTVEAHRASIMDKTGSGTVADLMRVVVKSEL 215
Cdd:PRK09935  164 GLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHEL 209
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 22-126 3.79e-09

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: 53.64  E-value: 3.79e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVE---DYESGETFIAQFNenvPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:cd17624     3 LVEDDALLGDGLKTGLRKAGYAVDwvrTGAEAEAALASGP---YDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILTAR 79

                          90       100
                  ....*....|....*....|....*...
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQ 126
Cdd:cd17624    80 DGVDDRVAGLDAGADDYLVKPFALEELL 107
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 20-119 6.58e-09

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: 52.38  E-value: 6.58e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQdHLLRRRID---APFIFIT 96
Cdd:cd19927     1 ILLVDDDPGIRLAVKDYLEDQGFTVIAASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLL-GKLRKNADfdtIPVIFLT 79

                          90       100
                  ....*....|....*....|...
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKP 119
Cdd:cd19927    80 AKGMTSDRIKGYNAGCDGYLSKP 102
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 20-120 1.29e-08

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: 51.90  E-value: 1.29e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQdHLLRRRIDAPFIFITGHG 99
Cdd:cd18159     1 ILIVEDDETIASLLKKHLEKWGYEVVLIEDFEDVLEEFLQFKPDLVLLDINLPYFDGFYWC-REIRQISNVPIIFISSRD 79

                          90       100
                  ....*....|....*....|.
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPF 120
Cdd:cd18159    80 DNMDQVMAINMGGDDYITKPF 100
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 20-131 1.52e-08

phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus DivK is an essential response regulator that is involved in the complex phosphorelay pathways controlling both cell division and motility. It localizes cell cycle regulators to specific poles of the cell during division. DivK contains a stand-alone REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381100 [Multi-domain]  Cd Length: 115  Bit Score: 51.77  E-value: 1.52e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDV-----QDHLLRrriDAPFIF 94
Cdd:cd17548     2 ILIVEDNPLNMKLARDLLESAGYEVLEAADGEEALEIARKEKPDLILMDIQLPGMDGLEAtrllkEDPATR---DIPVIA 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2574385910  95 ITGH---GDVPQAVQAfkkGAMDFIQKPFQQPQLQKLVER 131
Cdd:cd17548    79 LTAYamkGDREKILEA---GCDGYISKPIDTREFLETVAK 115
PRK15479 PRK15479
transcriptional regulator TctD;
58-164 2.91e-08

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 53.19  E-value: 2.91e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  58 NENVPSVILcDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTAK 137
Cdd:PRK15479   42 SEMYALAVL-DINMPGMDGLEVLQRLRKRGQTLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRRSA 120

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2574385910 138 ELFQRRQTLA------------QNRTLieKLTPREQQVL 164
Cdd:PRK15479  121 GQVQEVQQLGelifhdegyfllQGQPL--ALTPREQALL 157
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 20-133 2.96e-08

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


Pssm-ID: 381159 [Multi-domain]  Cd Length: 118  Bit Score: 51.26  E-value: 2.96e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRV-EDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIdAPFIFITGH 98
Cdd:cd19932     3 VLIAEDEALIRMDLREMLEEAGYEVvGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENI-APIVLLTAY 81

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAM 133
Cdd:cd19932    82 SQQDLVERAKEAGAMAYLVKPFSESDLIPAIEMAI 116
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 20-121 3.38e-08

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: 50.83  E-value: 3.38e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHlLRRRIDAPFIFITGHG 99
Cdd:cd19939     2 ILIVEDELELARLTRDYLIKAGLEVSVFTDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCRE-VREHSHVPILMLTART 80

                          90       100
                  ....*....|....*....|..
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQ 121
Cdd:cd19939    81 EEMDRVLGLEMGADDYLCKPFS 102
PRK10766 PRK10766
two-component system response regulator TorR;
20-169 3.86e-08

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 52.73  E-value: 3.86e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHlLRRRIDAPFIFITGHG 99
Cdd:PRK10766    5 ILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTRE-LRSRSTVGIILVTGRT 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQ----------KLVERAMKTAKE-----------LFQRRQTLAQNRTLIeKLTP 158
Cdd:PRK10766   84 DSIDRIVGLEMGADDYVTKPLELRELLvrvknllwriSLARQAQPHAQEedncyrfagycLNVSRRTLERNGEPI-KLTK 162

                         170       180
                  ....*....|....*....|....
gi 2574385910 159 RE-----------QQVL--ERIVN 169
Cdd:PRK10766  163 AEyellvafvtnpGQVLsrERLLR 186
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 20-134 4.27e-08

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: 50.42  E-value: 4.27e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNY--RVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITG 97
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDPDftVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMK 134
Cdd:cd19931    81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAAS 117
PRK10693 PRK10693
two-component system response regulator RssB;
48-173 2.56e-07

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 51.14  E-value: 2.56e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  48 ESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGDVPQAVQAFKKGAMDFIQKPFQqpQLQK 127
Cdd:PRK10693    4 ANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLKPVK--DLNR 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2574385910 128 LVER-------AMKTAK-----ELFQRRQTLAQN----RTLIEKLTPREQQVlerIVNGRLN 173
Cdd:PRK10693   82 LREMvfaclypSMFNSRveeeeRLFRDWDALVDNpaaaAKLLKQLQPPVQQV---IAHCRVN 140
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 20-119 3.68e-07

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: 48.16  E-value: 3.68e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLEStnyrVEDYE------SGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRiDAPFI 93
Cdd:cd17541     3 VLIVDDSAVMRKLLSRILES----DPDIEvvgtarDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAER-PTPVV 77

                          90       100
                  ....*....|....*....|....*...
gi 2574385910  94 FITGH--GDVPQAVQAFKKGAMDFIQKP 119
Cdd:cd17541    78 MVSSLteEGAEITLEALELGAVDFIAKP 105
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 22-119 5.35e-07

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: 47.05  E-value: 5.35e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGDV 101
Cdd:cd19935     3 VVEDEKKLAEYLKKGLTEEGYAVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPVLMLTARDSV 82

                          90
                  ....*....|....*...
gi 2574385910 102 PQAVQAFKKGAMDFIQKP 119
Cdd:cd19935    83 EDRVKGLDLGADDYLVKP 100
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 20-125 5.66e-07

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


Pssm-ID: 381137 [Multi-domain]  Cd Length: 116  Bit Score: 47.37  E-value: 5.66e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDV-QDhlLRRRIDAPFIFITGH 98
Cdd:cd17622     3 ILLVEDDPKLARLIADFLESHGFNVVVEHRGDRALEVIAREKPDAVLLDIMLPGIDGLTLcRD--LRPKYQGPILLLTAL 80

                          90       100
                  ....*....|....*....|....*..
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQL 125
Cdd:cd17622    81 DSDIDHILGLELGADDYVVKPVEPAVL 107
psREC_PRR cd17582
pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...
 20-119 8.20e-07

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: 46.62  E-value: 8.20e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSV--ILCDLRMPGMSG----SDVQDHLLRRRIdaPFI 93
Cdd:cd17582     1 VLLVENDDSTRQIVTALLRKCSYEVTAASDGLQAWDVLEDEQNEIdlILTEVDLPVSSGfkllSYIMRHKICKNI--PVI 78

                          90       100
                  ....*....|....*....|....*.
gi 2574385910  94 FITGHGDVPQAVQAFKKGAMDFIQKP 119
Cdd:cd17582    79 MMSSQDSVGVVFKCLSKGAADYLVKP 104
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 20-119 1.02e-06

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: 46.34  E-value: 1.02e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd19928     1 ILVADDDRAIRTVLTQALGRAGYEVRTTGNAATLWRWVEEGEGDLVITDVVMPDENGLDLIPRIKKARPDLPIIVMSAQN 80

                          90       100
                  ....*....|....*....|
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKP 119
Cdd:cd19928    81 TLMTAVKAAERGAFEYLPKP 100
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 20-125 1.21e-06

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


Pssm-ID: 381128 [Multi-domain]  Cd Length: 118  Bit Score: 46.55  E-value: 1.21e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGsdvqdHLLRRRI-------DAPF 92
Cdd:cd17598     1 ILIVEDSPTQAEQLKHILEEQGYKVQVARNGREALAMLAEHRPTLVISDIVMPEMDG-----YELCRKIksdpdlkDIPV 75

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2574385910  93 IFITGHGDVPQAVQAFKKGAMDFIQKPFQQPQL 125
Cdd:cd17598    76 ILLTTLSDPRDVIRGLECGADNFITKPYDEKYL 108
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
20-162 1.32e-06

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 48.26  E-value: 1.32e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVpSVILCDLRMPGMSGSDVQDHLlRRRIDAPFIFITGHG 99
Cdd:PRK10955    4 ILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLDDSI-DLLLLDVMMPKKNGIDTLKEL-RQTHQTPVIMLTARG 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVeRAMKTAKELFQRRQTLAQNRTLIE----KLTPREQQ 162
Cdd:PRK10955   82 SELDRVLGLELGADDYLPKPFNDRELVARI-RAILRRSHWSEQQQNNDNGSPTLEvdalSLNPGRQE 147
PLN03029 PLN03029
type-a response regulator protein; Provisional
 20-162 3.34e-06

type-a response regulator protein; Provisional


Pssm-ID: 215544 [Multi-domain]  Cd Length: 222  Bit Score: 46.95  E-value: 3.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIA--------QFNENVPSV------------ILCDLRMPGMSGSDV 79
Cdd:PLN03029   11 VLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKflglheddRSNPDTPSVspnshqevevnlIITDYCMPGMTGYDL 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  80 -----QDHLLRrriDAPFIFITGHgDVPQAV-QAFKKGAMDFIQKPFQQPQLQKLVERAMKTA----KELFQRRQTLAQN 149
Cdd:PLN03029   91 lkkikESSSLR---NIPVVIMSSE-NVPSRItRCLEEGAEEFFLKPVQLSDLNRLKPHMMKTKsknqKQENQEKQEKLEE 166

                         170
                  ....*....|...
gi 2574385910 150 RTLIEKLTPREQQ 162
Cdd:PLN03029  167 SEIQSEKQEQPSQ 179
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 20-120 4.18e-06

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 46.88  E-value: 4.18e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:PRK11083    6 ILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQPPDLVILDVGLPDISGFELCRQLLAFHPALPVIFLTARS 85

                          90       100
                  ....*....|....*....|.
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPF 120
Cdd:PRK11083   86 DEVDRLVGLEIGADDYVAKPF 106
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 20-134 5.92e-06

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 46.34  E-value: 5.92e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSD-VQDhlLRRRIDAPFIFITGH 98
Cdd:PRK10529    4 VLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPDLIILDLGLPDGDGIEfIRD--LRQWSAIPVIVLSAR 81

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAMK 134
Cdd:PRK10529   82 SEESDKIAALDAGADDYLSKPFGIGELQARLRVALR 117
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 138-197 6.62e-06

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 45.42  E-value: 6.62e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2574385910 138 ELFQRRQTLAQNRTLIEKLTPREQQVLE-RIVNGRLNKQIADDLGISIKTVEAHRASIMDK 197
Cdd:TIGR02937  93 EELEQEEEREALREALEKLPEREREVLVlRYLEGLSYKEIAEILGISVGTVKRRLKRARKK 153
REC_typeA_ARR cd17581
phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and ...
 20-128 8.83e-06

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


Pssm-ID: 381119 [Multi-domain]  Cd Length: 122  Bit Score: 44.28  E-value: 8.83e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESG---------ETFIAQFNENVPSV--ILCDLRMPGMSGSDvqdhlLRRRI 88
Cdd:cd17581     1 VLAVDDSLVDRKVIERLLRISSCRVTAVDSGkraleflglEDEEDSSNFNEPKVnmIITDYCMPGMTGYD-----LLKKV 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2574385910  89 -------DAPFIfITGHGDVPQAV-QAFKKGAMDFIQKPFQQPQLQKL 128
Cdd:cd17581    76 kessalkEIPVV-IMSSENIPTRIsRCLEEGAEDFLLKPVKLADVKRL 122
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 20-119 1.30e-05

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


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 43.13  E-value: 1.30e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRI--DAPFIFITG 97
Cdd:cd17602     1 VACVDDRPSIQKMIEYFLEKQGFRVVVIDDPLRALTTLLNSKPDLILIDIDMPDLDGYELCSLLRKSSAlkDTPIIMLTG 80

                          90       100
                  ....*....|....*....|..
gi 2574385910  98 HGDVPQAVQAFKKGAMDFIQKP 119
Cdd:cd17602    81 KDGLVDRIRAKMAGASGYLTKP 102
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 24-131 1.54e-05

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: 43.56  E-value: 1.54e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  24 DDDADVrESIKWLLESTN-----YRVEDYESGETFI---AQFNEN-VPSVILCDLRMPGMSGSDV-----QDHLLrRRId 89
Cdd:cd17557     7 DNPGDA-ELIQEAFKEAGvpnelHVVRDGEEALDFLrgeGEYADApRPDLILLDLNMPRMDGFEVlreikADPDL-RRI- 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2574385910  90 aPFIFITGHGDVPQAVQAFKKGAMDFIQKPFQQPQLQKLVER 131
Cdd:cd17557    84 -PVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRS 124
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 20-131 1.64e-05

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: 43.39  E-value: 1.64e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLEstnyRVEDY------ESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFI 93
Cdd:cd19925     3 VLIVEDDPMVAEIHRAYVE----QVPGFtvigtaGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVI 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2574385910  94 FITGHGDVpQAVQ-AFKKGAMDFIQKPFQQPQLQKLVER 131
Cdd:cd19925    79 VVTAANDV-ETVReALRLGVVDYLIKPFTFERLRQRLER 116
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 20-133 2.69e-05

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: 42.54  E-value: 2.69e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:cd17553     3 ILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMTAYG 82

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2574385910 100 DVPQAVQAFKKGAMDFIQKPFQQPQLQKLVERAM 133
Cdd:cd17553    83 ELDMIQESKELGALTHFAKPFDIDEIRDAVKKYL 116
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 20-132 3.07e-05

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


Pssm-ID: 381086 [Multi-domain]  Cd Length: 123  Bit Score: 42.81  E-value: 3.07e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNY-RVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:cd17530     3 VLVLDDDPFQCMMAATILEDLGPgNVDEADDGREALVILLCNAPDIIICDLKMPDMDGIEFLRHLAESHSNAAVILMSGL 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2574385910  99 GdvPQAVQAFKKGAMDF-------IQKPFQQPQLQKLVERA 132
Cdd:cd17530    83 D--GGILESAETLAGANglnllgtLSKPFSPEELTELLTKY 121
FliA COG1191
DNA-directed RNA polymerase specialized sigma subunit [Transcription]; DNA-directed RNA ...
 138-197 6.84e-05

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


Pssm-ID: 440804 [Multi-domain]  Cd Length: 236  Bit Score: 43.27  E-value: 6.84e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2574385910 138 ELFQRRQTLAQnrtLIEKLTPREQQVLERIVNGRLN-KQIADDLGISIKTVEAHRASIMDK 197
Cdd:COG1191   172 EHEELREALAE---AIEQLPERERLVLSLYYFEELTlKEIAEVLGVSESRVSRLHKKALAR 229
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 150-190 7.74e-05

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


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 42.16  E-value: 7.74e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2574385910 150 RTLIEKLTPREQQVLER-IVNGRLNKQIADDLGISIKTVEAH 190
Cdd:TIGR02985 108 EEAIEKLPEQCREIFILsRFEGLSNKEIAEELGISVKTVEYH 149
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 20-199 8.02e-05

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 42.90  E-value: 8.02e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNY--RVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSD-------VQDHLLRRRI-- 88
Cdd:PRK10840    6 VIIADDHPIVLFGIRKSLEQIEWvnVVGEFEDSTALINNLPKLDAHVLITDLSMPGDKYGDgitlikyIKRHFPSLSIiv 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  89 ----DAPFIF-------ITG----HG---DVPQAVQAFKKGamdfiqKPFQQPQLQKLVERamktakelfqrrqtLAQNR 150
Cdd:PRK10840   86 ltmnNNPAILsavldldIEGivlkQGaptDLPKALAALQKG------KKFTPESVSRLLEK--------------ISAGG 145

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 2574385910 151 TLIEKLTPREQQVLERIVNGRLNKQIADDLGISIKTVEAHRASIMDKTG 199
Cdd:PRK10840  146 YGDKRLSPKESEVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLG 194
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
125-199 8.74e-05

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 42.38  E-value: 8.74e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2574385910 125 LQKLVERAMKTAKELFQRRQTLAQNRTliekltPREQQVLER--IVNGRLNKQIADDLGISIKTVEAHRASIMDKTG 199
Cdd:COG2909    96 LERLLALAEAAGRLLLRALALRALGDR------EEALAALRRrlLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLG 166
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 150-192 8.86e-05

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


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 39.36  E-value: 8.86e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2574385910 150 RTLIEKLTPREQQVLE-RIVNGRLNKQIADDLGISIKTVEA--HRA 192
Cdd:pfam08281   5 LRALEELPPRQREVFLlRYLEGLSYAEIAELLGISEGTVKSrlSRA 50
REC_HP-RR-like cd17573
phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; ...
 20-125 1.15e-04

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: 40.88  E-value: 1.15e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYR---VEDYESGETFIAQFNENVpsvILCDLRMPGMSGSDVQDHLLRRRIDAPFIFIT 96
Cdd:cd17573     1 ILLIEDDSTLGKEISKGLNEKGYQadvAESLKDGEYYIDIRNYDL---VLVSDKLPDGNGLSIVSRIKEKHPSIVVIVLS 77

                          90       100
                  ....*....|....*....|....*....
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPFQQPQL 125
Cdd:cd17573    78 DNPKTEQEIEAFKEGADDYIAKPFDFKVL 106
dpiA PRK10046
two-component response regulator DpiA; Provisional
 62-198 1.22e-04

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 42.31  E-value: 1.22e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  62 PSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGDVPQAVQAFKKGAMDFIQKPFQqpqlqklVERAMKTAKELFQ 141
Cdd:PRK10046   51 PGLILLDNYLPDGRGINLLHELVQAHYPGDVVFTTAASDMETVSEAVRCGVFDYLIKPIA-------YERLGQTLTRFRQ 123

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2574385910 142 RRQTLAQNRTliekltpREQQVLERIVNGRLNKQIADDL--GISIKTVEAHRASIMDKT 198
Cdd:PRK10046  124 RKHMLESIDS-------ASQKQIDEMFNAYARGEPKDELptGIDPLTLNAVRKLFKEPG 175
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 138-192 1.38e-04

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


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 41.90  E-value: 1.38e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2574385910 138 ELFQRRQTLAQNRTLIEKLTPREQQVLE-RIVNGRLNKQIADDLGISIKTVEA--HRA 192
Cdd:COG1595   110 EALEAEELLEALLAALERLPPRQREVLVlRYLEGLSYAEIAEILGISEGTVKSrlSRA 167
PRK10816 PRK10816
two-component system response regulator PhoP;
20-168 1.76e-04

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 42.03  E-value: 1.76e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDvqdhLLRR----RIDAPFIFI 95
Cdd:PRK10816    3 VLVVEDNALLRHHLKVQLQDAGHQVDAAEDAKEADYYLNEHLPDIAIVDLGLPDEDGLS----LIRRwrsnDVSLPILVL 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  96 TGHGDVPQAVQAFKKGAMDFIQKPFQ----QPQLQKLVERAMKTAKEL-----FQ---RRQTLAQNRTLIeKLTPREQQV 163
Cdd:PRK10816   79 TARESWQDKVEVLSAGADDYVTKPFHieevMARMQALMRRNSGLASQVislppFQvdlSRRELSINDEVI-KLTAFEYTI 157


                  ....*
gi 2574385910 164 LERIV 168
Cdd:PRK10816  158 METLI 162
REC_TPR cd17589
phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...
 22-127 1.82e-04

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


Pssm-ID: 381123 [Multi-domain]  Cd Length: 115  Bit Score: 40.32  E-value: 1.82e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNY-RVEDYESGETFIAQFNENVPSVILCDLRM-PGMSGSDVQDHLLRRRIDAP---FIFIT 96
Cdd:cd17589     3 IVDDQPTFRSMLKSMLRSLGVtRIDTASSGEEALRMCENKTYDIVLCDYNLgKGKNGQQLLEELRHKKLISPstvFIMVT 82

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPFQQPQLQK 127
Cdd:cd17589    83 GESSRAMVLSALELEPDDYLLKPFTVSELRE 113
PRK11173 PRK11173
two-component response regulator; Provisional
 22-145 2.12e-04

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 41.92  E-value: 2.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGsdvqdhL-----LRRRIDAPFIFIT 96
Cdd:PRK11173    8 IVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSENDINLVIMDINLPGKNG------LllareLREQANVALMFLT 81

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2574385910  97 GHGDVPQAVQAFKKGAMDFIQKPFQQPQL----QKLVERAMKTAKELFQRRQT 145
Cdd:PRK11173   82 GRDNEVDKILGLEIGADDYITKPFNPRELtiraRNLLSRTMNLGTVSEERRSV 134
PRK09191 PRK09191
two-component response regulator; Provisional
 54-147 2.26e-04

two-component response regulator; Provisional


Pssm-ID: 236402 [Multi-domain]  Cd Length: 261  Bit Score: 41.76  E-value: 2.26e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  54 IAQFNENVPSVILCDLRM-PGMSGSD-VQDhlLRRRIDAPFIFITGH------GDVPQAvqAFkkgamdFIQKPFQQPQL 125
Cdd:PRK09191  175 VALAKKTRPGLILADIQLaDGSSGIDaVND--ILKTFDVPVIFITAFperlltGERPEP--AF------LITKPFQPDTV 244

                          90       100
                  ....*....|....*....|..
gi 2574385910 126 QKLVERAMktakeLFQRRQTLA 147
Cdd:PRK09191  245 KAAISQAL-----FFQETERLA 261
PRK10643 PRK10643
two-component system response regulator PmrA;
22-168 2.41e-04

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 41.56  E-value: 2.41e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHGDV 101
Cdd:PRK10643    5 IVEDDTLLLQGLILALQTEGYACDCASTAREAEALLESGHYSLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLILTARDTL 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910 102 PQAVQAFKKGAMDFIQKPFQQPQLQ----KLVERAMKTAKELFQ---------RRQTLAQNRTLIekLTPREQQVLERIV 168
Cdd:PRK10643   85 EDRVAGLDVGADDYLVKPFALEELHarirALIRRHQGQGENELQvgnltlnlgRQQVWLDGQELI--LTPKEFALLSRLM 162
ompR PRK09468
osmolarity response regulator; Provisional
 20-120 2.55e-04

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 41.50  E-value: 2.55e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGEtfiaQFN-----ENVPSVILcDLRMPGMSGSDVQDHLLRRRIDAPFIF 94
Cdd:PRK09468    8 ILVVDDDMRLRALLERYLTEQGFQVRSAANAE----QMDrlltrESFHLMVL-DLMLPGEDGLSICRRLRSQNNPTPIIM 82

                          90       100
                  ....*....|....*....|....*.
gi 2574385910  95 ITGHGDVPQAVQAFKKGAMDFIQKPF 120
Cdd:PRK09468   83 LTAKGEEVDRIVGLEIGADDYLPKPF 108
PRK14084 PRK14084
DNA-binding response regulator;
22-175 4.60e-04

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 40.89  E-value: 4.60e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDDDADVRESIKWLLESTNY--RVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGHG 99
Cdd:PRK14084    5 IVDDEPLARNELTYLLNEIGGfeEINEAENVKETLEALLINQYDIIFLDINLMDESGIELAAKIQKMKEPPAIIFATAHD 84

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2574385910 100 DVpqAVQAFKKGAMDFIQKPFQQPQLQKLVERAMKTakelfqRRQTLAQNRTLIEKLTPREQQVLERIVNGR---LNKQ 175
Cdd:PRK14084   85 QF--AVKAFELNATDYILKPFEQKRIEQAVNKVRAT------KAKDDNNASAIANDMSANFDQSLPIEIDDKihmLNQQ 155
REC_LytTR_AgrA-like cd17533
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; ...
 20-138 4.84e-04

phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; Members of the LytTR/AlgR family of response regulators contain a REC domain and a unique LytTR DNA-binding output domain that lacks the helix-turn-helix motif and consists mostly of beta-strands. Transcriptional regulators with the LytTR-type output domains are involved in biosynthesis of extracellular polysaccharides, fimbriation, expression of exoproteins, including toxins, and quorum sensing. Included in this AgrA-like group of LytTR/AlgR family response regulators are Staphylococcus aureus accessory gene regulator protein A (AgrA) and Streptococcus pneumoniae response regulator ComE, which are members of two-component regulatory systems. AgrA is a global regulator that controls the synthesis of virulence factors and other exoproteins. ComE is part of the ComD-ComE system that is part of a quorum-sensing signaling pathway that controls the development of competence, a physiological state required for genetic transformation. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381088 [Multi-domain]  Cd Length: 131  Bit Score: 39.14  E-value: 4.84e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIK------WLLESTNYRVEDYESGETFIAQFNENVPS---VILCDLRMPGMSGSDVQDHLLRRRIDA 90
Cdd:cd17533     3 IFILEDDKIQRVRLEeiieniLKIENIEYVIELTGKTEELLEKIKERGKNgiyFLDIDIKMEEKNGLEVAQKIRKYDPYA 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2574385910  91 PFIFITGHGD-VPQAVQaFKKGAMDFIQKPFQQPQLQKLVERAMKTAKE 138
Cdd:cd17533    83 IIIFVTTHSEfAPLTFE-YKVAALDFILKPLKLEEFKKRIEECIKYAQK 130
pleD PRK09581
response regulator PleD; Reviewed
 22-148 5.02e-04

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 41.04  E-value: 5.02e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  22 VIDD-DADVResikwLLE----STNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQdhllrRRIDA------ 90
Cdd:PRK09581    7 VVDDiPANVK-----LLEakllAEYYTVLTASSGAEAIAICEREQPDIILLDVMMPGMDGFEVC-----RRLKSdpatth 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2574385910  91 -PFIFITGHGDVPQAVQAFKKGAMDFIQKPFQQPQL----QKLVEraMKT-AKELFQRRQTLAQ 148
Cdd:PRK09581   77 iPVVMVTALDDPEDRVRGLEAGADDFLTKPINDVALfarvKSLTR--LKMvIDELRLRASTNAE 138
REC_TrxB cd17595
phosphoacceptor receiver (REC) domain a fused response regulator with a thioredoxin reductase ...
 20-126 7.20e-04

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: 38.86  E-value: 7.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLES---TNYRVEDYESGE------TFIAQFNENVpSVILCDLRMPGMSGSDVQDHLLRRRIDA 90
Cdd:cd17595     3 ILTVDDDPQVLRAVARDLRRqygKDYRVLRADSGAealdalKELKLRGEAV-ALFLVDQRMPEMDGVEFLEKAMELFPEA 81

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2574385910  91 PFIFITGHGDVPQAVQAFKKGAMDF-IQKPFQQPQLQ 126
Cdd:cd17595    82 KRVLLTAYADTDAAIRAINDVQLDYyLLKPWDPPEEK 118
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 21-119 9.61e-04

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: 38.02  E-value: 9.61e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  21 YVIDDDADVRESIKWLLES--TNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRIDAPFIFITGH 98
Cdd:cd17565     2 YIVDDDKNIIKILSDIIEDddLGEVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMISQV 81

                          90       100
                  ....*....|....*....|.
gi 2574385910  99 GDVPQAVQAFKKGAMDFIQKP 119
Cdd:cd17565    82 SDKEMIGKAYQAGIEFFINKP 102
PRK11517 PRK11517
DNA-binding response regulator HprR;
21-152 1.01e-03

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 39.50  E-value: 1.01e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  21 YVIDDDADVRESIKWLLEstnyrvEDYesgetfiaqfnenvpSVILCDLRMPGMSGSDVQdHLLRRRIDAPFIFITGHGD 100
Cdd:PRK11517   25 YVIDAVSDGRDGLYLALK------DDY---------------ALIILDIMLPGMDGWQIL-QTLRTAKQTPVICLTARDS 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2574385910 101 VPQAVQAFKKGAMDFIQKPFQQPQLQKLVeRAmktakelfQRRQTLAQNRTL 152
Cdd:PRK11517   83 VDDRVRGLDSGANDYLVKPFSFSELLARV-RA--------QLRQHHALNSTL 125
REC_ETR-like cd19933
phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and ...
 20-119 1.06e-03

phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and similar proteins; Plant ethylene receptors contain N-terminal transmembrane domains that contain an ethylene binding site and also serve in localization of the receptor to the endoplasmic reticulum or the Golgi apparatus and a C-terminal histidine kinase (HK)-like domain. There are five ethylene receptors (ETR1, ERS1, ETR2, ERS2, and EIN4) in Arabidopsis thaliana. ETR1, ETR2, and EIN4 also contain REC domains C-terminal to the HK domain. ETR1 and ERS1 belong to subfamily 1, and have functional HK domains while ETR2, ERS2, and EIN4 belong to subfamily 2, and lack the necessary residues for HK activity and may function as serine/threonine kinases. The plant hormone ethylene plays an important role in plant growth and development. It regulates seed germination, seedling growth, leaf and petal abscission, fruit ripening, organ senescence, and pathogen responses. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381160 [Multi-domain]  Cd Length: 117  Bit Score: 38.15  E-value: 1.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIA--QFNENVPSVILCDLRMPGMSGSDV--QDHLLRRRIDAPFIFI 95
Cdd:cd19933     3 VLLVDDNAVNRMVTKGLLEKLGCEVTTVSSGEECLNllASAEHSFQLVLLDLCMPEMDGFEValRIRKLFGRRERPLIVA 82

                          90       100
                  ....*....|....*....|....*
gi 2574385910  96 -TGHGDVPQAVQAFKKGAMDFIQKP 119
Cdd:cd19933    83 lTANTDDSTREKCLSLGMNGVITKP 107
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 8-164 1.26e-03

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 39.28  E-value: 1.26e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910   8 TNELSGENKNGLVYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHlLRRR 87
Cdd:PRK10710    1 MTELPIDENTPRILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYVRQTPPDLILLDLMLPGTDGLTLCRE-IRRF 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  88 IDAPFIFITGHGDVPQAVQAFKKGAMDFIQKPF-----------------QQPQLQKLVERAMKTAKElfQRRQTLAQNR 150
Cdd:PRK10710   80 SDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYsprevvarvktilrrckPQRELQQQDAESPLIIDE--SRFQASWRGK 157

                         170
                  ....*....|....
gi 2574385910 151 TLieKLTPREQQVL 164
Cdd:PRK10710  158 ML--DLTPAEFRLL 169
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 20-119 2.39e-03

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


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 36.97  E-value: 2.39e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGE-----TFIAQFNENVPS----VILCDLRMPGMSG----SDVQDHllRR 86
Cdd:cd19924     1 ILVVDDSPTARKQLRDLLKNLGFEIAEAVDGEealnkLENLAKEGNDLSkeldLIITDIEMPKMDGyeltFELRDD--PR 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2574385910  87 RIDAPFIFITGHGDVPQAVQAFKKGAMDFIQKP 119
Cdd:cd19924    79 LANIPVILNSSLSGEFSRARGKKVGADAYLAKF 111
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 146-207 2.60e-03

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 38.19  E-value: 2.60e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2574385910 146 LAQNRTLieklTPREQQVLERIVNGRLNKQIADDLGISIKTVEAHRASIMDKTGSGTVADLM 207
Cdd:PRK11475  129 INQSRML----SPTEREILRFMSRGYSMPQIAEQLERNIKTIRAHKFNVMSKLGVSSDAGLL 186
PRK13856 PRK13856
two-component response regulator VirG; Provisional
 20-120 3.26e-03

two-component response regulator VirG; Provisional


Pssm-ID: 172377 [Multi-domain]  Cd Length: 241  Bit Score: 38.26  E-value: 3.26e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2574385910  20 VYVIDDDADVRESIKWLLESTNYRVEDYESGETFIAQFNENVPSVILCDLRMPGMSGSDVQDHLLRRRiDAPFIFITGHG 99
Cdd:PRK13856    4 VLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLASETVDVVVVDLNLGREDGLEIVRSLATKS-DVPIIIISGDR 82

                          90       100
                  ....*....|....*....|..
gi 2574385910 100 -DVPQAVQAFKKGAMDFIQKPF 120
Cdd:PRK13856   83 lEEADKVVALELGATDFIAKPF 104
 
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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