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Conserved domains on  [gi|996236752|emb|CXJ02661|]
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Two-component response regulator [Staphylococcus aureus]

Protein Classification

response regulator transcription factor( domain architecture ID 14435700)

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

Gene Ontology:  GO:0006355|GO:0000160|GO:0003677
PubMed:  10966457|11557134|20226724|16740923

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 3-119 3.83e-50

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: 158.83  E-value: 3.83e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSM-PGMDGIEALRRLRRRYPDLKVIVLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVY 119
Cdd:cd17535   80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 155-209 1.97e-23

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


:

Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 88.74  E-value: 1.97e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 996236752   155 LSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYA 209
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
 
Name Accession Description Interval E-value
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 3-119 3.83e-50

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: 158.83  E-value: 3.83e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSM-PGMDGIEALRRLRRRYPDLKVIVLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVY 119
Cdd:cd17535   80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116
PRK15369 PRK15369
two component system response regulator;
2-216 2.26e-46

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 152.54  E-value: 2.26e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILIL 81
Cdd:PRK15369   5 KILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLP-GMNGLDVIPQLHQRWPAMNILVL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKGETYVDMKLTTSLVNEFVSNSNQDTantsdpfKILSKRELE 161
Cdd:PRK15369  84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNP-------PLLTPRERQ 156

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 996236752 162 ILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLLE 216
Cdd:PRK15369 157 ILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLIE 211
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-216 1.27e-41

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: 137.72  E-value: 1.27e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIadsfpetkili 80
Cdd:COG2197    2 IRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMP-GMDGLEALRRL----------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  81 ltmfddeeylfhvlrngakgyilknapdeqlllairtvykgetyvdmklttslvnefvsnsnqdtantsdpfkiLSKREL 160
Cdd:COG2197   70 --------------------------------------------------------------------------LTPRER 75

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 996236752 161 EILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLLE 216
Cdd:COG2197   76 EVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLLD 131
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 3-116 6.91e-25

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


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 94.14  E-value: 6.91e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752    3 IVIADDHAVVRTGFSMILNyQNDMeVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILILT 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE-KEGY-VVAEADDGKEALELLKEERPDLILLDINMP-GMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 996236752   83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIR 116
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 155-209 1.97e-23

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 88.74  E-value: 1.97e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 996236752   155 LSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYA 209
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 145-216 1.05e-20

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: 81.93  E-value: 1.05e-20
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 996236752 145 TANTSDPFKILSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLLE 216
Cdd:COG5905    3 PSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLS 74
GerE pfam00196
Bacterial regulatory proteins, luxR family;
154-209 1.04e-19

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 78.78  E-value: 1.04e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 996236752  154 ILSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYA 209
Cdd:pfam00196   2 SLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 155-211 2.22e-19

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


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 77.96  E-value: 2.22e-19
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 996236752 155 LSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALK 211
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 1-57 9.76e-11

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


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 55.27  E-value: 9.76e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 996236752     1 MKIVIADDHAVVRTGFSMILNYQNDMevVATAADGVEAYQKVMEYKPDVLLMDLSMP 57
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLEKEGYE--VDEATDGEEALELLKEEKPDLILLDIMMP 55
PRK10100 PRK10100
transcriptional regulator CsgD;
108-209 6.56e-07

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 48.33  E-value: 6.56e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752 108 DEQLLLAIRTVYKGETYVDMKLTTSLVnefvSNSNQDTANTSDPfKILSKRELEILPLIAKGYGNKEIAEKLFVSVKTVE 187
Cdd:PRK10100 114 QERVVNGLQGVLRGECYFTQKLASYLI----THSGNYRYNSTES-ALLTHREKEILNKLRIGASNNEIARSLFISENTVK 188

                         90       100
                 ....*....|....*....|..
gi 996236752 188 AHKTHIMTKLGLKSKPELVEYA 209
Cdd:PRK10100 189 THLYNLFKKIAVKNRTQAVSWA 210
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 29-98 1.67e-05

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: 44.74  E-value: 1.67e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 996236752   29 VATAADGVEAYQKVMEYKPDVLLMDLSMPP----GESGLIATSKIADSFPETKILILTMFDDEEYLFHVLRNGA 98
Cdd:TIGR02915  23 LAVAADRESAIALVRRHEPAVVTLDLGLPPdadgASEGLAALQQILAIAPDTKVIVITGNDDRENAVKAIGLGA 96
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 168-197 1.00e-03

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: 38.31  E-value: 1.00e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 996236752  168 KGYGNKEIAEKLFVSVKTVEAHKTHIMTKL 197
Cdd:TIGR02985 128 EGLSNKEIAEELGISVKTVEYHITKALKFL 157
 
Name Accession Description Interval E-value
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 3-119 3.83e-50

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: 158.83  E-value: 3.83e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSM-PGMDGIEALRRLRRRYPDLKVIVLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVY 119
Cdd:cd17535   80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116
PRK15369 PRK15369
two component system response regulator;
2-216 2.26e-46

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 152.54  E-value: 2.26e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILIL 81
Cdd:PRK15369   5 KILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLP-GMNGLDVIPQLHQRWPAMNILVL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKGETYVDMKLTTSLVNEFVSNSNQDTantsdpfKILSKRELE 161
Cdd:PRK15369  84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNP-------PLLTPRERQ 156

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 996236752 162 ILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLLE 216
Cdd:PRK15369 157 ILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLIE 211
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-216 1.27e-41

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: 137.72  E-value: 1.27e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIadsfpetkili 80
Cdd:COG2197    2 IRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMP-GMDGLEALRRL----------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  81 ltmfddeeylfhvlrngakgyilknapdeqlllairtvykgetyvdmklttslvnefvsnsnqdtantsdpfkiLSKREL 160
Cdd:COG2197   70 --------------------------------------------------------------------------LTPRER 75

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 996236752 161 EILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLLE 216
Cdd:COG2197   76 EVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLLD 131
PRK09483 PRK09483
response regulator; Provisional
 1-216 1.42e-39

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 135.23  E-value: 1.42e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILI 80
Cdd:PRK09483   2 INVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMP-GIGGLEATRKILRYTPDVKIIM 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKGETYV--DMKLTTSLvnefvsnsNQDTANTSDPFKILSKR 158
Cdd:PRK09483  81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIasDIAQQMAL--------SQIEPATENPFASLSER 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 996236752 159 ELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLLE 216
Cdd:PRK09483 153 ELQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGLLN 210
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 3-213 5.21e-39

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 133.62  E-value: 5.21e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILILT 82
Cdd:PRK10651   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMP-GMNGLETLDKLREKSLSGRIVVFS 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKGEtyvdMKLTTSLVNEFVSNSNQDTANTSDPFKILSKRELEI 162
Cdd:PRK10651  88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGE----MVLSEALTPVLAASLRANRATTERDVNQLTPRERDI 163

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 996236752 163 LPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKK 213
Cdd:PRK10651 164 LKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQER 214
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
2-202 2.27e-31

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 113.79  E-value: 2.27e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILIL 81
Cdd:PRK10403   8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMK-GMSGLDTLNALRRDGVTAQIIIL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKGEtyvdmKLTTSLVNEFVSNSNQDTAnTSDPFKILSKRELE 161
Cdd:PRK10403  87 TVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGS-----KVFSERVNQYLREREMFGA-EEDPFSVLTERELD 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 996236752 162 ILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSK 202
Cdd:PRK10403 161 VLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSR 201
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 3-118 6.50e-30

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


Pssm-ID: 381157 [Multi-domain]  Cd Length: 117  Bit Score: 106.97  E-value: 6.50e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd19930    1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEM-PGRTGLEVAAELREELPDTKVLIVT 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV 118
Cdd:cd19930   80 TFGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTV 115
PRK10360 PRK10360
transcriptional regulator UhpA;
1-205 6.70e-29

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 106.99  E-value: 6.70e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFpetKILI 80
Cdd:PRK10360   2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMP-DISGLELLSQLPKGM---ATIM 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKGETYVDMKLTTSLvnefvsnsnqdTANTSDPfkiLSKREL 160
Cdd:PRK10360  78 LSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKL-----------ASGRQDP---LTKRER 143

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 996236752 161 EILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPEL 205
Cdd:PRK10360 144 QVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVEL 188
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 2-104 8.58e-28

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: 101.39  E-value: 8.58e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILIL 81
Cdd:COG4753    1 KVLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKPDLVITDINM-PGMDGLELLEAIRELDPDTKIIIL 79

                         90       100
                 ....*....|....*....|...
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILK 104
Cdd:COG4753   80 SGYSDFEYAQEAIKLGADDYLLK 102
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
3-215 1.71e-25

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 98.41  E-value: 1.71e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILILT 82
Cdd:PRK09935   6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLP-GTDGFTFLKRIKQIQSTVKVLFLS 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKGETYVdmkltTSLVNEFVSNSNQDTANTSDpfKILSKRELEI 162
Cdd:PRK09935  85 SKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFF-----PSETLNYIKSNKCSTNSSTD--TVLSNREVTI 157

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 996236752 163 LPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLL 215
Cdd:PRK09935 158 LRYLVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHELL 210
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 3-120 2.24e-25

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: 95.48  E-value: 2.24e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQN-DMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILIL 81
Cdd:cd17536    1 VLIVDDEPLIREGLKKLIDWEElGFEVVGEAENGEEALELIEEHKPDIVITDIRM-PGMDGLELIEKIRELYPDIKIIIL 79

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYK 120
Cdd:cd17536   80 SGYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 3-116 6.91e-25

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


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 94.14  E-value: 6.91e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752    3 IVIADDHAVVRTGFSMILNyQNDMeVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILILT 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE-KEGY-VVAEADDGKEALELLKEERPDLILLDINMP-GMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 996236752   83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIR 116
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
1-214 1.31e-23

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 93.42  E-value: 1.31e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILI 80
Cdd:PRK09958   1 MNAIIIDDHPLAIAAIRNLLI-KNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIP-GVNGIQVLETLRKRQYSGIIII 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKGETYVDMKLttslvNEFVsnsnqdTANTSDPFKI--LSKR 158
Cdd:PRK09958  79 VSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSL-----NRFV------GSLTSDQQKLdsLSKQ 147

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 996236752 159 ELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKL 214
Cdd:PRK09958 148 EISVMRYILDGKDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQRNKI 203
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 155-209 1.97e-23

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 88.74  E-value: 1.97e-23
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 996236752   155 LSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYA 209
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 1-118 5.27e-21

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: 84.25  E-value: 5.27e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILI 80
Cdd:cd17542    1 KKVLIVDDAAFMRMMLKDILT-KAGYEVVGEAANGEEAVEKYKELKPDLVTMDITM-PEMDGIEALKEIKKIDPNAKVIM 78

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV 118
Cdd:cd17542   79 CSAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 3-211 5.71e-21

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: 86.31  E-value: 5.71e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMIL---NYQndmevVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKIL 79
Cdd:COG4566    2 VYIVDDDEAVRDSLAFLLesaGLR-----VETFASAEAFLAALDPDRPGCLLLDVRMP-GMSGLELQEELAARGSPLPVI 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  80 ILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKgetyvdmklttslVNEFVSNSNQDTANTSDPFKILSKRE 159
Cdd:COG4566   76 FLTGHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALA-------------RDRARRAERARRAELRARLASLTPRE 142

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 996236752 160 LEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALK 211
Cdd:COG4566  143 REVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLALA 194
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 3-116 8.03e-21

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: 83.55  E-value: 8.03e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd19931    1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNM-KGMSGLDTLKALREEGVSARIVILT 79

                         90       100       110
                 ....*....|....*....|....*....|....
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIR 116
Cdd:cd19931   80 VSDAEDDVVTALRAGADGYLLKDMEPEDLLEALK 113
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 145-216 1.05e-20

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: 81.93  E-value: 1.05e-20
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 996236752 145 TANTSDPFKILSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLLE 216
Cdd:COG5905    3 PSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLS 74
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
155-215 2.37e-20

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 84.42  E-value: 2.37e-20
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 996236752 155 LSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLL 215
Cdd:COG2771  128 LTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGLI 188
GerE pfam00196
Bacterial regulatory proteins, luxR family;
154-209 1.04e-19

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 78.78  E-value: 1.04e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 996236752  154 ILSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYA 209
Cdd:pfam00196   2 SLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 1-104 1.40e-19

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: 80.51  E-value: 1.40e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPeTKILI 80
Cdd:cd17541    1 IRVLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELKPDVITLDIEM-PVMDGLEALRRIMAERP-TPVVM 78

                         90       100
                 ....*....|....*....|....*.
gi 996236752  81 LTMFDDE--EYLFHVLRNGAKGYILK 104
Cdd:cd17541   79 VSSLTEEgaEITLEALELGAVDFIAK 104
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 155-211 2.22e-19

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


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 77.96  E-value: 2.22e-19
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 996236752 155 LSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALK 211
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 1-208 5.40e-19

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 81.42  E-value: 5.40e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPpGE---SGLIATSKIADSFPETK 77
Cdd:PRK10840   4 MNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMP-GDkygDGITLIKYIKRHFPSLS 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  78 ILILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKGETYVDmklttslvnEFVSNSNQDTANTSDPFKILSK 157
Cdd:PRK10840  83 IIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTP---------ESVSRLLEKISAGGYGDKRLSP 153

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 996236752 158 RELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEY 208
Cdd:PRK10840 154 KESEVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNY 204
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-118 3.99e-18

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


Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 81.55  E-value: 3.99e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyQNDMEVVaTAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPETKILI 80
Cdd:COG2204    3 ARILVVDDDPDIRRLLKELLE-RAGYEVE-TAASGEEALALLREEPPDLVLLDLRMP-GMDGLELLRELRALDPDLPVIL 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV 118
Cdd:COG2204   80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERA 117
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 1-118 6.10e-18

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: 76.43  E-value: 6.10e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyQNDMEVVaTAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKI--ADSFPETKI 78
Cdd:COG0784    6 KRILVVDDNPDNRELLRRLLE-RLGYEVT-TAEDGAEALELLRAGPPDLILLDINM-PGMDGLELLRRIraLPRLPDIPI 82

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 996236752  79 LILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV 118
Cdd:COG0784   83 IALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRL 122
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-198 1.24e-17

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: 77.69  E-value: 1.24e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyQNDMEVVaTAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILI 80
Cdd:COG0745    2 PRILVVEDDPDIRELLADALE-REGYEVD-TAADGEEALELLEEERPDLILLDLML-PGMDGLEVCRRLRARPSDIPIIM 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVykgetyVDMKLTTSLVNEFVSNSNQDTANTSDPFKILSKREL 160
Cdd:COG0745   79 LTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRAL------LRRRAAEVLRVGDLLDLAAREVTRDGEPVELTPKEF 152

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 996236752 161 EILPLIAKGYGN----KEIAEKL----FVSVKTVEAHKTHIMTKLG 198
Cdd:COG0745  153 RLLELLMRNPGRvvsrEQLLEEVwgydYGDDRTVDVHISRLRKKLE 198
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-125 4.80e-17

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


Pssm-ID: 442920 [Multi-domain]  Cd Length: 179  Bit Score: 75.33  E-value: 4.80e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyQNDMEVVaTAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKI--ADSFPETKI 78
Cdd:COG3706    2 ARILVVDDDPTNRKLLRRLLE-AAGYEVV-EAADGEEALELLQEHRPDLILLDLEM-PDMDGLELCRRLraDPRTADIPI 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 996236752  79 LILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV--YKGETYV 125
Cdd:COG3706   79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVarYGGEEFA 127
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 5-104 1.05e-16

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: 72.26  E-value: 1.05e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   5 IADDHAVVRTGFSMILNYQNdmEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILTMF 84
Cdd:cd00156    2 IVDDDPAIRELLKSLLEREG--YEVDTAADGEEALELLREERPDLVLLDLMM-PGMDGLELLRKLRELPPDIPVIVLTAK 78

                         90       100
                 ....*....|....*....|
gi 996236752  85 DDEEYLFHVLRNGAKGYILK 104
Cdd:cd00156   79 ADEEDAVRALELGADDYLVK 98
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-104 1.90e-16

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 72.69  E-value: 1.90e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPPGeSGLIATSKIADSFPETKILI 80
Cdd:COG4565    4 IRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDG-DGLELLRELRARGPDVDVIV 82

                         90       100
                 ....*....|....*....|....
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILK 104
Cdd:COG4565   83 ITAARDPETVREALRAGVVDYLIK 106
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 1-117 3.12e-15

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: 68.98  E-value: 3.12e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNdMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPPGEsGLIATSKIADSFPeTKILI 80
Cdd:cd19932    1 VRVLIAEDEALIRMDLREMLEEAG-YEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLD-GIEAAKIITSENI-APIVL 77

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRT 117
Cdd:cd19932   78 LTAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIEM 114
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-120 5.91e-15

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 71.00  E-value: 5.91e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILI 80
Cdd:COG3279    2 MKILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKPDLVFLDIQM-PGLDGFELARQLRELDPPPPIIF 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 996236752  81 LTMFDdeEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYK 120
Cdd:COG3279   81 TTAYD--EYALEAFEVNAVDYLLKPIDEERLAKALEKAKE 118
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
1-57 2.15e-14

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 70.56  E-value: 2.15e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMP 57
Cdd:PRK00742   4 IRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLNPDVITLDVEMP 60
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
165-216 2.97e-14

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 68.19  E-value: 2.97e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 996236752 165 LIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALKKKLLE 216
Cdd:COG2909  133 LLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGLLA 184
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 2-104 3.37e-14

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


Pssm-ID: 381109 [Multi-domain]  Cd Length: 108  Bit Score: 66.09  E-value: 3.37e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPPGEsGLIATSKIADSF--PETKIL 79
Cdd:cd17561    3 KVLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLD-GIGVLEKLRRMRleKRPKII 81

                         90       100
                 ....*....|....*....|....*
gi 996236752  80 ILTMFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd17561   82 MLTAFGQEDITQRAVELGASYYILK 106
Spo0A COG5801
Stage 0 sporulation initiation regulator Spo0A (response regulator, REC-HTH domains) [Cell ...
 1-144 3.77e-14

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


Pssm-ID: 444503 [Multi-domain]  Cd Length: 264  Bit Score: 69.06  E-value: 3.77e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVvrtgFSMIL----NYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPET 76
Cdd:COG5801    5 IKVLIADDNRE----FCELLeeylSSQPDMEVVGVAYNGLEALELIEEKKPDVVILDIIM-PHLDGLGVLEKLREMNLEK 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 996236752  77 --KILILTMFDDEEYLFHVLRNGAKGYILKnaP-DEQLLLA-IRTVYKGETYVDMKLTTSLVNEFVSNSNQD 144
Cdd:COG5801   80 rpKVIMLTAFGQEDITQRAVELGADYYILK--PfDLDVLAErIRQLAGGKAESETSKKKSSPETASVDKARD 149
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-118 8.83e-14

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: 67.50  E-value: 8.83e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMIL---NYQndmevVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKI--ADSFPE 75
Cdd:COG3437    7 PTVLIVDDDPENLELLRQLLrtlGYD-----VVTAESGEEALELLLEAPPDLILLDVRM-PGMDGFELLRLLraDPSTRD 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 996236752  76 TKILILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV 118
Cdd:COG3437   81 IPVIFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNA 123
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-118 1.75e-12

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: 63.44  E-value: 1.75e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETkILI 80
Cdd:COG3707    4 LRVLVVDDEPLRRADLREGLR-EAGYEVVAEAADGEDAVELVRELKPDLVIVDIDM-PDRDGLEAARQISEERPAP-VIL 80

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV 118
Cdd:COG3707   81 LTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALELA 118
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
1-83 3.40e-12

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 64.13  E-value: 3.40e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPPGEsGLIATSKIADSFPeTKILI 80
Cdd:PRK12555   1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMD-GVEATRRIMAERP-CPILI 78


                 ...
gi 996236752  81 LTM 83
Cdd:PRK12555  79 VTS 81
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 3-104 6.10e-12

phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; Members of the LytTR/AlgR family of response regulators contain a REC domain and a unique LytTR DNA-binding output domain that lacks the helix-turn-helix motif and consists mostly of beta-strands. Transcriptional regulators with the LytTR-type output domains are involved in biosynthesis of extracellular polysaccharides, fimbriation, expression of exoproteins, including toxins, and quorum sensing. Included in this AlgR-like group of LytTR/AlgR family response regulators are Streptococcus agalactiae sensory transduction protein LytR, Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR, Bacillus subtilis sensory transduction protein LytT, and Escherichia coli transcriptional regulatory protein BtsR, which are members of two-component regulatory systems. LytR and LytT are components of regulatory systems that regulate genes involved in cell wall metabolism. AlgR positively regulates the algD gene, which codes for a GDP-mannose dehydrogenase, a key enzyme in the alginate biosynthesis pathway. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381087 [Multi-domain]  Cd Length: 118  Bit Score: 60.24  E-value: 6.10e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd17532    1 ALIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELKPDVVFLDIQM-PGLDGLELAKKLSKLAKPPLIVFVT 79

                         90       100
                 ....*....|....*....|..
gi 996236752  83 MFDdeEYLFHVLRNGAKGYILK 104
Cdd:cd17532   80 AYD--EYAVEAFELNAVDYLLK 99
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 1-116 3.33e-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: 58.00  E-value: 3.33e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILnyQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILI 80
Cdd:cd17554    1 KKILVVDDEENIRELYKEEL--EDEGYEVVTAGNGEEALEKLESEDPDLVILDIKM-PGMDGLETLRKIREKKPDLPVII 77

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 996236752  81 LTMFDDEEYLFHVLrnGAKGYILKNAPDEQLLLAIR 116
Cdd:cd17554   78 CTAYSEYKSDFSSW--AADAYVVKSSDLTELKETIK 111
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
2-116 3.53e-11

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 61.79  E-value: 3.53e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNdMEVVAtAADGVEAYQKVMEYKPDVLLMDLSMPPgESGLIATSKIADSFPETKILIL 81
Cdd:PRK11361   6 RILIVDDEDNVRRMLSTAFALQG-FETHC-ANNGRTALHLFADIHPDVVLMDIRMPE-MDGIKALKEMRSHETRTPVILM 82

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIR 116
Cdd:PRK11361  83 TAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQ 117
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 1-115 3.98e-11

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: 58.19  E-value: 3.98e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPPGESGLIATSKIADSFPeTKILI 80
Cdd:cd17534    1 KKILIVEDEAIIALDLKEILE-SLGYEVVGIADSGEEAIELAEENKPDLILMDINLKGDMDGIEAAREIREKFD-IPVIF 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAI 115
Cdd:cd17534   79 LTAYSDEETLERAKETNPYGYLVKPFNERELKAAI 113
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 5-104 6.49e-11

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: 57.03  E-value: 6.49e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   5 IADDHAVVRTGFSMILNyQNDMEVVaTAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILTMF 84
Cdd:cd17574    2 VVEDDEEIAELLSDYLE-KEGYEVD-TAADGEEALELAREEQPDLIILDVML-PGMDGFEVCRRLREKGSDIPIIMLTAK 78

                         90       100
                 ....*....|....*....|
gi 996236752  85 DDEEYLFHVLRNGAKGYILK 104
Cdd:cd17574   79 DEEEDKVLGLELGADDYITK 98
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 2-118 7.91e-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: 57.36  E-value: 7.91e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNdmEVVATAADGVEAYQKVMEYKPDVLLMDLsMPPGESGLIATSKIADSFPETKILIL 81
Cdd:cd17615    1 RVLVVDDEPNITELLSMALRYEG--WDVETAADGAEALAAAREFRPDAVVLDI-MLPDMDGLEVLRRLRADGPDVPVLFL 77

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV 118
Cdd:cd17615   78 TAKDSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRAL 114
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 1-57 9.76e-11

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


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 55.27  E-value: 9.76e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 996236752     1 MKIVIADDHAVVRTGFSMILNYQNDMevVATAADGVEAYQKVMEYKPDVLLMDLSMP 57
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLEKEGYE--VDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 3-116 1.03e-09

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: 54.31  E-value: 1.03e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNdmEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd17627    1 ILVVDDDRAVRESLRRSLRFEG--YEVETAVDGAEALRVISGNRPDAVVLDVMM-PRLDGLEVCRRLRAAGNDLPILVLT 77

                         90       100       110
                 ....*....|....*....|....*....|....
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIR 116
Cdd:cd17627   78 ARDSVSDRVAGLDAGADDYLVKPFALEELLARVR 111
fixJ PRK09390
response regulator FixJ; Provisional
 4-210 2.51e-09

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 55.01  E-value: 2.51e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   4 VIADDHAVvRTGFSMILNyQNDMEVV--ATAADGVEAyqkVMEYKPDVLLMDLSMPpGESG--LIATSKIADS-FPetkI 78
Cdd:PRK09390   8 VVDDDEAM-RDSLAFLLD-SAGFEVRlfESAQAFLDA---LPGLRFGCVVTDVRMP-GIDGieLLRRLKARGSpLP---V 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  79 LILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYKgetyvdmklttSLVNEFVSNSnqDTANTSDPFKILSKR 158
Cdd:PRK09390  79 IVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALA-----------QAPEAAKSEA--VAADIRARIASLSER 145

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 996236752 159 ELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYAL 210
Cdd:PRK09390 146 ERQVMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVRMAL 197
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 2-116 4.36e-09

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: 52.38  E-value: 4.36e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTgfsMILNY--QNDMEVVaTAADGVEAYQKVMEYKPDVLLMDLsMPPGESGLIATSKIADSFpETKIL 79
Cdd:cd17622    2 RILLVEDDPKLAR---LIADFleSHGFNVV-VEHRGDRALEVIAREKPDAVLLDI-MLPGIDGLTLCRDLRPKY-QGPIL 75

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 996236752  80 ILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIR 116
Cdd:cd17622   76 LLTALDSDIDHILGLELGADDYVVKPVEPAVLLARLR 112
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 62-209 5.74e-09

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 53.98  E-value: 5.74e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  62 GLIATSKIADSFPETKILILTMFDDEEYLF-HVLRNGAKGYILKNAP----DEQLLLAIRTVYKgetyvdmklttslVNE 136
Cdd:PRK11475  55 GLSCLTELAIKFPRMRRLVIADDDIEARLIgSLSPSPLDGVLSKASTleilQQELFLSLNGVRQ-------------ATD 121

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 996236752 137 fvSNSNQDTANTSDPfkiLSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYA 209
Cdd:PRK11475 122 --RLNNQWYINQSRM---LSPTEREILRFMSRGYSMPQIAEQLERNIKTIRAHKFNVMSKLGVSSDAGLLDAA 189
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 3-88 1.25e-08

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


Pssm-ID: 381112 [Multi-domain]  Cd Length: 103  Bit Score: 51.12  E-value: 1.25e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd17565    1 FYIVDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQPDIVLIDLLM-PGMDGIQLVRKLKDTGSNGKFIMIS 79


                 ....*.
gi 996236752  83 MFDDEE 88
Cdd:cd17565   80 QVSDKE 85
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 2-104 1.85e-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: 50.62  E-value: 1.85e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNdmEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKI-ADsfPETK--- 77
Cdd:cd17548    1 KILIVEDNPLNMKLARDLLESAG--YEVLEAADGEEALEIARKEKPDLILMDIQL-PGMDGLEATRLLkED--PATRdip 75

                         90       100       110
                 ....*....|....*....|....*....|
gi 996236752  78 ILILT---MFDDEEylfHVLRNGAKGYILK 104
Cdd:cd17548   76 VIALTayaMKGDRE---KILEAGCDGYISK 102
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 2-116 1.92e-08

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: 50.66  E-value: 1.92e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNyQNDMEVVAtAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILIL 81
Cdd:cd17555    2 TILVIDDDEVVRESIAAYLE-DSGFQVLQ-AADGRQGLELFRSEQPDLVLCDLRM-PEMDGLEVLKQITKESPDTPVIVV 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILKNAPD-EQLLLAIR 116
Cdd:cd17555   79 SGAGVMSDAVEALRLGAWDYLTKPIEDlAVLEHAVR 114
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 2-118 6.75e-08

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: 49.22  E-value: 6.75e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILN---YQndmevVATAADGVEAYQKVMEYKPDVLLMDLSMPPGES-GLIATSKIADSFPETK 77
Cdd:cd17562    2 KILAVDDSASIRQMVSFTLRgagYE-----VVEAADGRDALSKAQSKKFDLIITDQNMPNMDGiELIKELRKLPAYKFTP 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 996236752  78 ILILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV 118
Cdd:cd17562   77 ILMLTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 2-104 1.10e-07

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: 48.26  E-value: 1.10e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMIL---NYQndmevVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSfPETK- 77
Cdd:cd17538    1 KILVVDDEPANRELLEALLsaeGYE-----VLTADSGQEALALAEEELPDLILLDVMM-PGMDGFEVCRRLKED-PETRh 73

                         90       100
                 ....*....|....*....|....*....
gi 996236752  78 --ILILTMFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd17538   74 ipVIMITALDDREDRIRGLEAGADDFLSK 102
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 3-104 1.20e-07

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: 48.62  E-value: 1.20e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNyQNDMEVVaTAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKI---ADSFPETKIL 79
Cdd:cd17546    1 VLVVDDNPVNRKVLKKLLE-KLGYEVD-VAENGQEALELLKEEPFDLVLMDLQM-PVMDGLEATRRIrelEGGGRRTPII 77

                         90       100
                 ....*....|....*....|....*
gi 996236752  80 ILTMFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd17546   78 ALTANALEEDREKCLEAGMDDYLSK 102
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 1-82 3.85e-07

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: 47.05  E-value: 3.85e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVvrtgFSMILnyQNDME----VVATAADGVEAYQKVMEYKPDVLLMDLSMPpGESGLIATSKIADSFPET 76
Cdd:cd17563    1 KSLLLVDDDEV----FAERL--ARALErrgfEVETAHSVEEALALAREEKPDYAVLDLRLG-GDSGLDLIPPLRALQPDA 73


                 ....*.
gi 996236752  77 KILILT 82
Cdd:cd17563   74 RIVVLT 79
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 3-62 4.99e-07

second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal transduction histidine kinase D and similar domains; Dictyostelium discoideum hybrid signal transduction histidine kinase D (DhkD) is a large protein that contains two histidine kinase (HK) and two REC domains on the intracellular side of a single pass transmembrane domain, and extracellular PAS and PAC domains that likely are involved in ligand binding. This model represents the second REC domain and similar domains. DhkD activates the cAMP phosphodiesterase RegA to ensure proper prestalk and prespore patterning, tip formation, and the vertical elongation of the mound into a finger, in Dictyostelium discoideum. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381118 [Multi-domain]  Cd Length: 112  Bit Score: 46.68  E-value: 4.99e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 996236752   3 IVIADDHAVVRTGFSMILnyqnDME--VVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESG 62
Cdd:cd17580    1 ILVVDDNEDAAEMLALLL----ELEgaEVTTAHSGEEALEAAQRFRPDVILSDIGM-PGMDG 57
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 29-116 6.08e-07

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: 47.99  E-value: 6.08e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  29 VATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILTMFDDEEYLFHVLRNGAKGYILKNAPD 108
Cdd:COG4567   31 VTTAASVEEALALLEQAPPDYAVLDLRL-GDGSGLDLIEALRERDPDARIVVLTGYASIATAVEAIKLGADDYLAKPADA 109


                 ....*...
gi 996236752 109 EQLLLAIR 116
Cdd:COG4567  110 DDLLAALE 117
PRK11697 PRK11697
two-component system response regulator BtsR;
1-104 6.49e-07

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 48.30  E-value: 6.49e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIaDsfPET--KI 78
Cdd:PRK11697   2 IKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQM-PRISGLELVGML-D--PEHmpYI 77

                         90       100
                 ....*....|....*....|....*.
gi 996236752  79 LILTMFDdeEYLFHVLRNGAKGYILK 104
Cdd:PRK11697  78 VFVTAFD--EYAIKAFEEHAFDYLLK 101
PRK10100 PRK10100
transcriptional regulator CsgD;
108-209 6.56e-07

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 48.33  E-value: 6.56e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752 108 DEQLLLAIRTVYKGETYVDMKLTTSLVnefvSNSNQDTANTSDPfKILSKRELEILPLIAKGYGNKEIAEKLFVSVKTVE 187
Cdd:PRK10100 114 QERVVNGLQGVLRGECYFTQKLASYLI----THSGNYRYNSTES-ALLTHREKEILNKLRIGASNNEIARSLFISENTVK 188

                         90       100
                 ....*....|....*....|..
gi 996236752 188 AHKTHIMTKLGLKSKPELVEYA 209
Cdd:PRK10100 189 THLYNLFKKIAVKNRTQAVSWA 210
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 2-117 1.55e-06

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


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 45.54  E-value: 1.55e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILnyQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLsMPPGESGLIATSKIADSfPETKILIL 81
Cdd:cd17626    2 RILVVDDDAALAEMIGIVL--RGEGFDPAFCGDGTQALAAFREVRPDLVLLDL-MLPGIDGIEVCRQIRAE-SGVPIVML 77

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRT 117
Cdd:cd17626   78 TAKSDTVDVVLGLESGADDYVAKPFKPKELVARIRA 113
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 1-104 4.82e-06

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: 44.25  E-value: 4.82e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPPgESGLIATSKI-ADS-FPETKI 78
Cdd:cd19923    1 MKVLVVDDFSTMRRIIKNLLK-ELGFNNVEEAEDGVDALEKLKAGGFDFVITDWNMPN-MDGLELLKTIrADGaLSHLPV 78

                         90       100
                 ....*....|....*....|....*.
gi 996236752  79 LILTMFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd19923   79 LMVTAEAKKENVIAAAQAGVNNYIVK 104
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 2-104 5.21e-06

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


Pssm-ID: 381104 [Multi-domain]  Cd Length: 121  Bit Score: 44.08  E-value: 5.21e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADD----HAVVRTGFSMILNYQndmevVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGlIATSKIADSFPETK 77
Cdd:cd17552    3 RILVIDDeediREVVQACLEKLAGWE-----VLTASSGQEGLEKAATEQPDAILLDVMM-PDMDG-LATLKKLQANPETQ 75

                         90       100       110
                 ....*....|....*....|....*....|..
gi 996236752  78 ---ILILT--MFDDEEYLFHVLrnGAKGYILK 104
Cdd:cd17552   76 sipVILLTakAQPSDRQRFASL--GVAGVIAK 105
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
155-215 5.23e-06

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 46.48  E-value: 5.23e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 996236752 155 LSKRELEILPLIAKGYGNKEIAEKLFVSVKTVeahKTHIMT---KLGLKSKPELVEYAlkKKLL 215
Cdd:PRK04841 839 LTQREWQVLGLIYSGYSNEQIAGELDVAATTI---KTHIRNlyqKLGIAHRQEAVQHA--QDLL 897
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 3-116 8.69e-06

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: 43.89  E-value: 8.69e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILnyQNDMEVvATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd17596    3 ILVVDDEVRSLEALRRTL--EEDFDV-LTAASAEEALAILEEEWVQVILCDQRM-PGTTGVEFLKEVRERWPEVVRIIIS 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 996236752  83 MFDDEEYLFHVLRN-GAKGYILKNAPDEQLLLAIR 116
Cdd:cd17596   79 GYTDSEDIIAGINEaGIYQYLTKPWHPDQLLLTVR 113
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 1-104 1.18e-05

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: 43.20  E-value: 1.18e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNYQNDMEVVATAaDGVEAYQKVMEYKPDVLLMDLSMpPGESGL--IATSKIADSFPETKI 78
Cdd:cd17551    1 MRILIVDDNPTNLLLLEALLRSAGYLEVVSFT-DPREALAWCRENPPDLILLDYMM-PGMDGLefIRRLRALPGLEDVPI 78

                         90       100
                 ....*....|....*....|....*.
gi 996236752  79 LILTMFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd17551   79 VMITADTDREVRLRALEAGATDFLTK 104
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 2-104 1.25e-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: 43.00  E-value: 1.25e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILIL 81
Cdd:cd19925    2 NVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYL-PDGNGLDLLRELRAAGHDVDVIVV 80

                         90       100
                 ....*....|....*....|...
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd19925   81 TAANDVETVREALRLGVVDYLIK 103
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 29-98 1.67e-05

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: 44.74  E-value: 1.67e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 996236752   29 VATAADGVEAYQKVMEYKPDVLLMDLSMPP----GESGLIATSKIADSFPETKILILTMFDDEEYLFHVLRNGA 98
Cdd:TIGR02915  23 LAVAADRESAIALVRRHEPAVVTLDLGLPPdadgASEGLAALQQILAIAPDTKVIVITGNDDRENAVKAIGLGA 96
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 1-57 3.84e-05

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


Pssm-ID: 381124 [Multi-domain]  Cd Length: 117  Bit Score: 41.75  E-value: 3.84e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 996236752   1 MKIVIADDHAVVRTgfSMILNYQNDMEV-VATAADGVEAYQKVMEYKPDVLLMDLSMP 57
Cdd:cd17593    1 MKVLICDDSSMARK--QLARALPADWDVeITFAENGEEALEILREGRIDVLFLDLTMP 56
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 2-118 5.37e-05

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: 41.08  E-value: 5.37e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNyQNDMEVVAtAADGVEAYQKVMEYKPDVLLMDLsMPPGESG--LIATSKIADSFPETKIL 79
Cdd:cd17618    2 TILIVEDEPAIREMIAFNLE-RAGFDVVE-AEDAESAVNLIVEPRPDLILLDW-MLPGGSGiqFIRRLKRDEMTRDIPII 78

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 996236752  80 ILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTV 118
Cdd:cd17618   79 MLTARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAV 117
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 29-104 7.55e-05

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: 40.87  E-value: 7.55e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 996236752  29 VATAADGVEAYQKVMEYKPDVLLMDLsMPPGESGLIATSKIADSFpETKILILTMFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd17614   25 VVTAYDGREALEKVEEEQPDLILLDL-MLPEKDGLEVCREVRKTS-NVPIIMLTAKDSEVDKVLGLELGADDYVTK 98
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 2-116 1.42e-04

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: 40.12  E-value: 1.42e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNYQNdmEVVATAADGVEAYQKVMEYKPDVLLMDLsMPPGESGLIATSKIADSFPETKILIL 81
Cdd:cd17594    1 HVLVVDDDAAMRHLLILYLRERG--FDVTAAADGAEEARLMLHRRVDLVLLDL-RLGQESGLDLLRTIRARSDVPIIIIS 77

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIR 116
Cdd:cd17594   78 GDRRDEIDRVVGLELGADDYLAKPFGLRELLARVR 112
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 2-120 1.58e-04

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: 40.09  E-value: 1.58e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAV----VRTGFSmILNYQNDMEVVAtaaDGVEAyqkvMEY-----------KPDVLLMDLSMpPGESGLIAT 66
Cdd:cd17557    1 TILLVEDNPGdaelIQEAFK-EAGVPNELHVVR---DGEEA----LDFlrgegeyadapRPDLILLDLNM-PRMDGFEVL 71

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 996236752  67 SKI-ADsfPETK---ILILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYK 120
Cdd:cd17557   72 REIkAD--PDLRripVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSLGE 127
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 3-104 1.79e-04

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


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 39.46  E-value: 1.79e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNdmEVVATAADGVEAYQKVMEYKPDVLLMDLSMPPGEsGLIATSKIAdSFPETKILILT 82
Cdd:cd17620    1 ILVIEDEPQIRRFLRTALEAHG--YRVFEAETGQEGLLEAATRKPDLIILDLGLPDMD-GLEVIRRLR-EWSAVPVIVLS 76

                         90       100
                 ....*....|....*....|..
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd17620   77 ARDEESDKIAALDAGADDYLTK 98
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 28-116 1.84e-04

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


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 39.57  E-value: 1.84e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  28 VVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILTMFDDEEYLFHVLRNGAKGYILKNAP 107
Cdd:cd19934   24 VVDVAEDGEEALFQGEEEPYDLVVLDLGL-PGMDGLSVLRRWRSEGRATPVLILTARDSWQDKVEGLDAGADDYLTKPFH 102


                 ....*....
gi 996236752 108 DEQLLLAIR 116
Cdd:cd19934  103 IEELLARLR 111
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 3-104 2.71e-04

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


Pssm-ID: 381134 [Multi-domain]  Cd Length: 113  Bit Score: 39.29  E-value: 2.71e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNdmEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSfPETKILILT 82
Cdd:cd17619    3 ILIVEDEPVTRATLKSYFEQEG--YDVSEAGDGEEMRQILARQDIDLVLLDINL-PGKDGLSLTRELREQ-SEVGIILVT 78

                         90       100
                 ....*....|....*....|..
gi 996236752  83 MFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd17619   79 GRDDEVDRIVGLEIGADDYVTK 100
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 3-82 3.43e-04

phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and similar proteins; NtrX is part of the two-component regulatory system NtrY/NtrX that is involved in the activation of nitrogen assimilatory genes such as Gln. It is phosphorylated by the histidine kinase NtrY and interacts with sigma-54. NtrX is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. NtrC family response regulators are sigma54-dependent transcriptional activators. Also included in this subfamily is Aquifex aeolicus NtrC4. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381102 [Multi-domain]  Cd Length: 115  Bit Score: 39.02  E-value: 3.43e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNdmEVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILT 82
Cdd:cd17550    1 ILIVDDEEDIRESLSGILEDEG--YEVDTAADGEEALKLIKERRPDLVLLDIWL-PDMDGLELLKEIKEKYPDLPVIMIS 77
PRK10693 PRK10693
two-component system response regulator RssB;
32-104 4.28e-04

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 40.36  E-value: 4.28e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 996236752  32 AADGVEAYQKVMEYKPDVLLMDLSMPPgESGLIATSKIADSFPETKILILTMFDDEEYLFHVLRNGAKGYILK 104
Cdd:PRK10693   3 AANGVDALELLGGFTPDLIICDLAMPR-MNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLK 74
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
2-120 5.12e-04

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 39.70  E-value: 5.12e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   2 KIVIADDHAVVRTGFSMILNyQNDMEVVAtAADGVEAYQKVMEYKPDVLLMDLsMPPGESGL--IATSKIADSFPETKIL 79
Cdd:PRK10161   4 RILVVEDEAPIREMVCFVLE-QNGFQPVE-AEDYDSAVNQLNEPWPDLILLDW-MLPGGSGIqfIKHLKRESMTRDIPVV 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 996236752  80 ILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYK 120
Cdd:PRK10161  81 MLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121
PRK10816 PRK10816
two-component system response regulator PhoP;
1-162 7.45e-04

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 39.34  E-value: 7.45e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRTGFSMILNyqnDM-EVVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKIL 79
Cdd:PRK10816   1 MRVLVVEDNALLRHHLKVQLQ---DAgHQVDAAEDAKEADYYLNEHLPDIAIVDLGL-PDEDGLSLIRRWRSNDVSLPIL 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  80 ILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVykgetyvdMKLTTSLVNEFVSNSnqdtantsdPFKI-LSKR 158
Cdd:PRK10816  77 VLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQAL--------MRRNSGLASQVISLP---------PFQVdLSRR 139


                 ....
gi 996236752 159 ELEI 162
Cdd:PRK10816 140 ELSI 143
orf27 CHL00148
Ycf27; Reviewed
 1-120 9.60e-04

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 38.93  E-value: 9.60e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVR----TGFSMIlNYQndmevVATAADGVEAYQKVMEYKPDVLLMDLsMPPGESGLIATSKIADSfPET 76
Cdd:CHL00148   7 EKILVVDDEAYIRkileTRLSII-GYE-----VITASDGEEALKLFRKEQPDLVILDV-MMPKLDGYGVCQEIRKE-SDV 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 996236752  77 KILILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVYK 120
Cdd:CHL00148  79 PIIMLTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVLR 122
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 168-197 1.00e-03

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: 38.31  E-value: 1.00e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 996236752  168 KGYGNKEIAEKLFVSVKTVEAHKTHIMTKL 197
Cdd:TIGR02985 128 EGLSNKEIAEELGISVKTVEYHITKALKFL 157
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 29-86 1.04e-03

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: 37.64  E-value: 1.04e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 996236752  29 VATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKILILTMFDD 86
Cdd:cd19919   27 VTSFENAQEALAALASSQPDVLISDIRM-PGMDGLALLAQIKQRHPDLPVIIMTAHSD 83
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 3-57 1.07e-03

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


Pssm-ID: 381154 [Multi-domain]  Cd Length: 102  Bit Score: 37.36  E-value: 1.07e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 996236752   3 IVIADDHAVVRTGFSMILNYQnDMEVVaTAADGVEAYQKVMEYKPDVLLMDLSMP 57
Cdd:cd19927    1 ILLVDDDPGIRLAVKDYLEDQ-GFTVI-AASNGLEALDLLNQYIPDLIISDIIMP 53
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 1-167 1.18e-03

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 38.75  E-value: 1.18e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHavVRTGFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLsMPPGESGLIATSKIADSFPETKILI 80
Cdd:PRK09836   1 MKLLIVEDE--KKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDI-MLPDVNGWDIVRMLRSANKGMPILL 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  81 LTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRTVY-KGETYVD------MKLTTSLVNEFVSNSNQDTANTSDPFK 153
Cdd:PRK09836  78 LTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLrRGAAVIIesqfqvADLMVDLVSRKVTRSGTRITLTSKEFT 157

                        170
                 ....*....|....*....
gi 996236752 154 ILS---KRELEILP--LIA 167
Cdd:PRK09836 158 LLEfflRHQGEVLPrsLIA 176
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 29-104 1.68e-03

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: 36.72  E-value: 1.68e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  29 VATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKI-ADsfPETK---ILILTMFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd19920   25 VLVATDGQQALQRAQAEPPDLILLDVMM-PGMDGFEVCRRLkAD--PATRhipVIFLTALTDTEDKVKGFELGAVDYITK 101
PRK10188 PRK10188
transcriptional regulator SdiA;
155-209 2.14e-03

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 38.23  E-value: 2.14e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 996236752 155 LSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYA 209
Cdd:PRK10188 180 FSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQIACYA 234
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 3-104 2.17e-03

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: 36.27  E-value: 2.17e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILnyQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPP-GESGLIATSKIADSFPetkILIL 81
Cdd:cd19936    1 IALVDDDRNILTSVSMAL--EAEGFSVETYTDGASALDGLNARPPDLAILDIKMPRmDGMELLQRLRQKSTLP---VIFL 75

                         90       100
                 ....*....|....*....|...
gi 996236752  82 TMFDDEEYLFHVLRNGAKGYILK 104
Cdd:cd19936   76 TSKDDEIDEVFGLRMGADDYITK 98
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 3-128 5.97e-03

phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The GGDEF response regulator WspR is part of the Wsp system that is homologous to chemotaxis systems and also includes the membrane-bound receptor protein WspA. In response to growth on surfaces, WspR is phosphorylated by the Wsp signal transduction complex and is activated, functioning as a diguanylate cyclase (DGC) that catalyzes c-di-GMP synthesis. WspR is a hybrid response regulator-diguanylate cyclase, containing an N-terminal REC domain and a C-terminal GGDEF domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381117 [Multi-domain]  Cd Length: 128  Bit Score: 35.85  E-value: 5.97e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILNYQNDMEVvATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATsKIADSFPETK---IL 79
Cdd:cd17575    3 VLLVDDQAIIGEAVRRALADEEDIDF-HYCSDPTEAIEVASQIKPTVILQDLVM-PGVDGLTLV-RFFRANPATRdipII 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 996236752  80 ILTMFDDEEYLFHVLRNGAKGYILKnAPDEQLLLAiRTVYKGETYVDMK 128
Cdd:cd17575   80 VLSTKEEPEVKSEAFALGANDYLVK-LPDKIELVA-RIRYHSRSYINLL 126
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 3-114 7.06e-03

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: 35.38  E-value: 7.06e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMIL---NYQndmevVATAADGVEAYQKVMEYKPDVLLMDLSMPPGES-GLIATSKIADSFPETKI 78
Cdd:cd17598    1 ILIVEDSPTQAEQLKHILeeqGYK-----VQVARNGREALAMLAEHRPTLVISDIVMPEMDGyELCRKIKSDPDLKDIPV 75

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 996236752  79 LILTMFDDEEYLFHVLRNGAKGYILKnaP-DEQLLLA 114
Cdd:cd17598   76 ILLTTLSDPRDVIRGLECGADNFITK--PyDEKYLLS 110
REC_LytTR_AgrA-like cd17533
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; ...
 1-117 7.63e-03

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: 35.29  E-value: 7.63e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   1 MKIVIADDHAVVRT-------GFSMILNYQNDMEVVATAADGVEAYQKVMEYKPDVLLMDLSMPPgESGLIATSKIADSF 73
Cdd:cd17533    1 MNIFILEDDKIQRVrleeiieNILKIENIEYVIELTGKTEELLEKIKERGKNGIYFLDIDIKMEE-KNGLEVAQKIRKYD 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 996236752  74 PETKILILTMFDDEEYLFHVLRNGAKGYILKNAPDEQLLLAIRT 117
Cdd:cd17533   80 PYAIIIFVTTHSEFAPLTFEYKVAALDFILKPLKLEEFKKRIEE 123
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 3-82 8.13e-03

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: 34.79  E-value: 8.13e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752   3 IVIADDHAVVRTGFSMILN---YQndmevVATAADGVEAYQKVMEYKPDVLLMDLSMpPGESGLIATSKIADSFPETKIL 79
Cdd:cd19928    1 ILVADDDRAIRTVLTQALGragYE-----VRTTGNAATLWRWVEEGEGDLVITDVVM-PDENGLDLIPRIKKARPDLPII 74


                 ...
gi 996236752  80 ILT 82
Cdd:cd19928   75 VMS 77
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 29-118 8.21e-03

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: 35.04  E-value: 8.21e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 996236752  29 VATAADGVEAYQKVMEYKPDVLLMDLsMPPGESGLIATSKIADSFpETKILILTMFDDEEYLFHVLRNGAKGYILKNAPD 108
Cdd:cd19939   26 VSVFTDGQRAVRRIIDEQPSLVVLDI-MLPGMDGLTVCREVREHS-HVPILMLTARTEEMDRVLGLEMGADDYLCKPFSP 103

                         90
                 ....*....|
gi 996236752 109 EQLLLAIRTV 118
Cdd:cd19939  104 RELLARVRAL 113
 
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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