NCBI Conserved Domain Search

Conserved domains on [gi|487749609|ref|WP_001831558|]

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MULTISPECIES: nitrate respiration regulation response regulator NreC [Staphylococcus]

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

8.72e-52

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: 163.07 E-value: 8.72e-52

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSM-PGMDGIEALRRLRRRYPDLKVIVLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVY 119
Cdd:cd17535   80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116

HTH_LUXR

smart00421

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

156-210

1.20e-22

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

Pssm-ID: 197715 [Multi-domain] Cd Length: 58 Bit Score: 86.43 E-value: 1.20e-22

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 487749609   156 LSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYA 210
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

8.72e-52

Pssm-ID: 381090 [Multi-domain] Cd Length: 117 Bit Score: 163.07 E-value: 8.72e-52

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSM-PGMDGIEALRRLRRRYPDLKVIVLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVY 119
Cdd:cd17535   80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116

PRK15369

two component system response regulator;

2-217

7.58e-50

two component system response regulator;

Pssm-ID: 185267 [Multi-domain] Cd Length: 211 Bit Score: 161.40 E-value: 7.58e-50

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILIL 81
Cdd:PRK15369   5 KILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLP-GMNGLDVIPQLHQRWPAMNILVL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGETYVDMKLTTSLVNEFVNQSQTDEvspssdpfKILSKREL 161
Cdd:PRK15369  84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNP--------PLLTPRER 155

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 487749609 162 EILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLLE 217
Cdd:PRK15369 156 QILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLIE 211

CitB

COG2197

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...

1-217

2.44e-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: 136.95 E-value: 2.44e-41

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKIsesfpetkili 80
Cdd:COG2197    2 IRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMP-GMDGLEALRRL----------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  81 ltmfddeeylfhvlksgakgyilknspdeqlilavrtvyqgetyvdmklttslvnefvnqsqtdevspssdpfkiLSKRE 160
Cdd:COG2197   70 ---------------------------------------------------------------------------LTPRE 74

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 487749609 161 LEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLLE 217
Cdd:COG2197   75 REVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLLD 131

Response_reg

pfam00072

Response regulator receiver domain; This domain receives the signal from the sensor partner in ...

3-116

7.72e-27

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: 99.15 E-value: 7.72e-27

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609    3 IVIADDHAVVRTGFSMILNyQEDMeVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILILT 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE-KEGY-VVAEADDGKEALELLKEERPDLILLDINMP-GMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 487749609   83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVR 116
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111

HTH_LUXR

smart00421

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

156-210

1.20e-22

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

Pssm-ID: 197715 [Multi-domain] Cd Length: 58 Bit Score: 86.43 E-value: 1.20e-22

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 487749609   156 LSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYA 210
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58

GerE

pfam00196

Bacterial regulatory proteins, luxR family;

155-210

1.04e-19

Bacterial regulatory proteins, luxR family;

Pssm-ID: 425517 [Multi-domain] Cd Length: 57 Bit Score: 79.17 E-value: 1.04e-19

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 487749609  155 ILSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYA 210
Cdd:pfam00196   2 SLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57

CsgD

COG2771

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

156-216

2.18e-19

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

Pssm-ID: 442052 [Multi-domain] Cd Length: 188 Bit Score: 82.11 E-value: 2.18e-19

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 487749609 156 LSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLL 216
Cdd:COG2771  128 LTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGLI 188

LuxR_C_like

cd06170

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...

156-212

4.30e-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: 77.19 E-value: 4.30e-19

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 487749609 156 LSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALK 212
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57

REC

smart00448

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...

1-57

4.41e-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: 56.04 E-value: 4.41e-11

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 487749609     1 MKIVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMP 57
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLE-KEGYEVD-EATDGEEALELLKEEKPDLILLDIMMP 55

PRK10100

transcriptional regulator CsgD;

108-210

2.33e-06

transcriptional regulator CsgD;

Pssm-ID: 182241 [Multi-domain] Cd Length: 216 Bit Score: 46.79 E-value: 2.33e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609 108 DEQLILAVRTVYQGETYVDMKLTTSLVNEFVN-QSQTDEVSPssdpfkiLSKRELEILPLIAKGYGNKDIAEKLFVSVKT 186
Cdd:PRK10100 114 QERVVNGLQGVLRGECYFTQKLASYLITHSGNyRYNSTESAL-------LTHREKEILNKLRIGASNNEIARSLFISENT 186

                         90       100
                 ....*....|....*....|....
gi 487749609 187 VEAHKTHIMTKLNLKSKPELVEYA 210
Cdd:PRK10100 187 VKTHLYNLFKKIAVKNRTQAVSWA 210

PEP_resp_reg

TIGR02915

PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...

29-98

4.09e-06

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: 46.67 E-value: 4.09e-06

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 487749609   29 VATAADGVEAYQKVLEHRPDVLILDLSMPP----GESGLIATSKISESFPETKILILTMFDDEEYLFHVLKSGA 98
Cdd:TIGR02915  23 LAVAADRESAIALVRRHEPAVVTLDLGLPPdadgASEGLAALQQILAIAPDTKVIVITGNDDRENAVKAIGLGA 96

Sig70_bacteroi1

TIGR02985

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...

169-198

7.67e-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: 35.62 E-value: 7.67e-03

                          10        20        30
                  ....*....|....*....|....*....|
gi 487749609  169 KGYGNKDIAEKLFVSVKTVEAHKTHIMTKL 198
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

8.72e-52

Pssm-ID: 381090 [Multi-domain] Cd Length: 117 Bit Score: 163.07 E-value: 8.72e-52

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSM-PGMDGIEALRRLRRRYPDLKVIVLT 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVY 119
Cdd:cd17535   80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116

PRK15369

two component system response regulator;

2-217

7.58e-50

two component system response regulator;

Pssm-ID: 185267 [Multi-domain] Cd Length: 211 Bit Score: 161.40 E-value: 7.58e-50

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILIL 81
Cdd:PRK15369   5 KILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLP-GMNGLDVIPQLHQRWPAMNILVL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGETYVDMKLTTSLVNEFVNQSQTDEvspssdpfKILSKREL 161
Cdd:PRK15369  84 TARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNP--------PLLTPRER 155

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 487749609 162 EILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLLE 217
Cdd:PRK15369 156 QILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLIE 211

CitB

COG2197

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...

1-217

2.44e-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: 136.95 E-value: 2.44e-41

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKIsesfpetkili 80
Cdd:COG2197    2 IRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMP-GMDGLEALRRL----------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  81 ltmfddeeylfhvlksgakgyilknspdeqlilavrtvyqgetyvdmklttslvnefvnqsqtdevspssdpfkiLSKRE 160
Cdd:COG2197   70 ---------------------------------------------------------------------------LTPRE 74

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 487749609 161 LEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLLE 217
Cdd:COG2197   75 REVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLLD 131

PRK10651

transcriptional regulator NarL; Provisional

3-214

4.61e-40

transcriptional regulator NarL; Provisional

Pssm-ID: 182619 [Multi-domain] Cd Length: 216 Bit Score: 136.31 E-value: 4.61e-40

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILILT 82
Cdd:PRK10651   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMP-GMNGLETLDKLREKSLSGRIVVFS 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGETYVDMKLTTSLVnefvnQSQTDEVSPSSDPFKILSKRELE 162
Cdd:PRK10651  88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLA-----ASLRANRATTERDVNQLTPRERD 162

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 487749609 163 ILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKK 214
Cdd:PRK10651 163 ILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQER 214

PRK09483

response regulator; Provisional

1-217

9.66e-40

response regulator; Provisional

Pssm-ID: 236538 [Multi-domain] Cd Length: 217 Bit Score: 135.62 E-value: 9.66e-40

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILI 80
Cdd:PRK09483   2 INVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMP-GIGGLEATRKILRYTPDVKIIM 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGETYvdmklttsLVNEFVNQSQTDEVSPSSD-PFKILSKR 159
Cdd:PRK09483  81 LTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRY--------IASDIAQQMALSQIEPATEnPFASLSER 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 487749609 160 ELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLLE 217
Cdd:PRK09483 153 ELQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGLLN 210

PRK10403

nitrate/nitrite response regulator protein NarP;

2-203

2.15e-32

nitrate/nitrite response regulator protein NarP;

Pssm-ID: 182431 [Multi-domain] Cd Length: 215 Bit Score: 116.49 E-value: 2.15e-32

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILIL 81
Cdd:PRK10403   8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMK-GMSGLDTLNALRRDGVTAQIIIL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGEtyvdmKLTTSLVNEFVNQSQTDEVSPssDPFKILSKREL 161
Cdd:PRK10403  87 TVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGS-----KVFSERVNQYLREREMFGAEE--DPFSVLTEREL 159

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|..
gi 487749609 162 EILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSK 203
Cdd:PRK10403 160 DVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSR 201

REC_DesR-like

cd19930

phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...

3-118

6.52e-32

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: 112.37 E-value: 6.52e-32

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd19930    1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEM-PGRTGLEVAAELREELPDTKVLIVT 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV 118
Cdd:cd19930   80 TFGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTV 115

PRK10360

transcriptional regulator UhpA;

1-206

1.37e-29

transcriptional regulator UhpA;

Pssm-ID: 182408 [Multi-domain] Cd Length: 196 Bit Score: 108.91 E-value: 1.37e-29

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFpetKILI 80
Cdd:PRK10360   2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMP-DISGLELLSQLPKGM---ATIM 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKN-SPDEqLILAVRTVYQGETYvdmkLTTSLVNEFVNQSQtdevspssDPfkiLSKR 159
Cdd:PRK10360  78 LSVHDSPALVEQALNAGARGFLSKRcSPDE-LIAAVHTVATGGCY----LTPDIAIKLASGRQ--------DP---LTKR 141

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 487749609 160 ELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPEL 206
Cdd:PRK10360 142 ERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVEL 188

YesN

COG4753

Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...

2-104

2.24e-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: 102.93 E-value: 2.24e-28

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILIL 81
Cdd:COG4753    1 KVLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKPDLVITDINM-PGMDGLELLEAIRELDPDTKIIIL 79

                         90       100
                 ....*....|....*....|...
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILK 104
Cdd:COG4753   80 SGYSDFEYAQEAIKLGADDYLLK 102

REC_YesN-like

cd17536

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...

3-120

2.04e-27

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

Pssm-ID: 381091 [Multi-domain] Cd Length: 121 Bit Score: 100.87 E-value: 2.04e-27

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQE-DMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILIL 81
Cdd:cd17536    1 VLIVDDEPLIREGLKKLIDWEElGFEVVGEAENGEEALELIEEHKPDIVITDIRM-PGMDGLELIEKIRELYPDIKIIIL 79

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQ 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

7.72e-27

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: 99.15 E-value: 7.72e-27

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609    3 IVIADDHAVVRTGFSMILNyQEDMeVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILILT 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLE-KEGY-VVAEADDGKEALELLKEERPDLILLDINMP-GMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 487749609   83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVR 116
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111

PRK09935

fimbriae biosynthesis transcriptional regulator FimZ;

3-216

6.49e-24

fimbriae biosynthesis transcriptional regulator FimZ;

Pssm-ID: 182154 [Multi-domain] Cd Length: 210 Bit Score: 94.56 E-value: 6.49e-24

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILILT 82
Cdd:PRK09935   6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLP-GTDGFTFLKRIKQIQSTVKVLFLS 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGETYVdmkltTSLVNEFVNQSQTDEVSPSSDPfkiLSKRELE 162
Cdd:PRK09935  85 SKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFF-----PSETLNYIKSNKCSTNSSTDTV---LSNREVT 156

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 487749609 163 ILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLL 216
Cdd:PRK09935 157 ILRYLVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHELL 210

PRK09958

acid-sensing system DNA-binding response regulator EvgA;

1-215

2.73e-23

acid-sensing system DNA-binding response regulator EvgA;

Pssm-ID: 182168 [Multi-domain] Cd Length: 204 Bit Score: 92.65 E-value: 2.73e-23

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQeDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILI 80
Cdd:PRK09958   1 MNAIIIDDHPLAIAAIRNLLIKN-DIEILAELTEGGSAVQRVETLKPDIVIIDVDIP-GVNGIQVLETLRKRQYSGIIII 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGETYVDMKLttslvNEFVNQSQTDEvspssDPFKILSKRE 160
Cdd:PRK09958  79 VSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSL-----NRFVGSLTSDQ-----QKLDSLSKQE 148

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 487749609 161 LEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKL 215
Cdd:PRK09958 149 ISVMRYILDGKDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQRNKI 203

HTH_LUXR

smart00421

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

156-210

1.20e-22

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

Pssm-ID: 197715 [Multi-domain] Cd Length: 58 Bit Score: 86.43 E-value: 1.20e-22

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 487749609   156 LSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYA 210
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58

FixJ

COG4566

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...

3-212

4.30e-22

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription];

Pssm-ID: 443623 [Multi-domain] Cd Length: 196 Bit Score: 89.00 E-value: 4.30e-22

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNyQEDMEVvATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILILT 82
Cdd:COG4566    2 VYIVDDDEAVRDSLAFLLE-SAGLRV-ETFASAEAFLAALDPDRPGCLLLDVRMP-GMSGLELQEELAARGSPLPVIFLT 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKnsP--DEQLILAVRTVYQGEtyvdmklttslVNEFVNQSQTDEVSPSsdpFKILSKRE 160
Cdd:COG4566   79 GHGDVPMAVRAMKAGAVDFLEK--PfdDQALLDAVRRALARD-----------RARRAERARRAELRAR---LASLTPRE 142

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 487749609 161 LEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALK 212
Cdd:COG4566  143 REVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLALA 194

REC_CheB-like

cd17541

phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...

1-106

2.95e-20

phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate methylesterase CheB and similar chemotaxis proteins; Methylesterase CheB is a chemotaxis response regulator with an N-terminal REC domain and a C-terminal methylesterase domain. Chemotaxis is a behavior known in motile bacteria that directs their movement in response to chemical gradients. CheB is a phosphorylation-activated response regulator involved in the reversible modification of bacterial chemotaxis receptors. It catalyzes the demethylation of specific methylglutamate residues introduced into the chemoreceptors (methyl-accepting chemotaxis proteins) by CheR. The CheB REC domain packs against the active site of the C-terminal domain and inhibits methylesterase activity by directly restricting access to the active site. Also included in this family is chemotaxis response regulator CheY, which contains a stand-alone REC domain, and an uncharacterized subfamily composed of proteins containing an N-terminal REC domain and a C-terminal CheY-P phosphatase (CheC) domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381096 [Multi-domain] Cd Length: 125 Bit Score: 82.44 E-value: 2.95e-20

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPeTKILI 80
Cdd:cd17541    1 IRVLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELKPDVITLDIEM-PVMDGLEALRRIMAERP-TPVVM 78

                         90       100
                 ....*....|....*....|....*...
gi 487749609  81 LTMFDDE--EYLFHVLKSGAKGYILKNS 106
Cdd:cd17541   79 VSSLTEEgaEITLEALELGAVDFIAKPS 106

REC_NarL

cd19931

phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...

3-116

5.70e-20

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: 81.63 E-value: 5.70e-20

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd19931    1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNM-KGMSGLDTLKALREEGVSARIVILT 79

                         90       100       110
                 ....*....|....*....|....*....|....
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVR 116
Cdd:cd19931   80 VSDAEDDVVTALRAGADGYLLKDMEPEDLLEALK 113

GerE

pfam00196

Bacterial regulatory proteins, luxR family;

155-210

1.04e-19

Bacterial regulatory proteins, luxR family;

Pssm-ID: 425517 [Multi-domain] Cd Length: 57 Bit Score: 79.17 E-value: 1.04e-19

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 487749609  155 ILSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYA 210
Cdd:pfam00196   2 SLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57

OmpR

COG0745

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...

1-198

1.22e-19

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription];

Pssm-ID: 440508 [Multi-domain] Cd Length: 204 Bit Score: 83.08 E-value: 1.22e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILI 80
Cdd:COG0745    2 PRILVVEDDPDIRELLADALE-REGYEVD-TAADGEEALELLEEERPDLILLDLML-PGMDGLEVCRRLRARPSDIPIIM 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKN-SPDEqLILAVRTVyqgetyVDMKLTTSLVNEFVNQSQTDEVSPSSDPFKiLSKR 159
Cdd:COG0745   79 LTARDDEEDRVRGLEAGADDYLTKPfDPEE-LLARIRAL------LRRRAAEVLRVGDLLDLAAREVTRDGEPVE-LTPK 150

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 487749609 160 ELEILPLIAKGYGN----KDIAEKL----FVSVKTVEAHKTHIMTKL 198
Cdd:COG0745  151 EFRLLELLMRNPGRvvsrEQLLEEVwgydYGDDRTVDVHISRLRKKL 197

REC_CheY

cd17542

phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...

1-118

1.77e-19

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: 80.02 E-value: 1.77e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILI 80
Cdd:cd17542    1 KKVLIVDDAAFMRMMLKDILT-KAGYEVVGEAANGEEAVEKYKELKPDLVTMDITM-PEMDGIEALKEIKKIDPNAKVIM 78

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV 118
Cdd:cd17542   79 CSAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116

AtoC

COG2204

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...

1-118

1.96e-19

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: 85.40 E-value: 1.96e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILI 80
Cdd:COG2204    3 ARILVVDDDPDIRRLLKELLE-RAGYEVE-TAASGEEALALLREEPPDLVLLDLRM-PGMDGLELLRELRALDPDLPVIL 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV 118
Cdd:COG2204   80 LTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERA 117

CsgD

COG2771

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

156-216

2.18e-19

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

Pssm-ID: 442052 [Multi-domain] Cd Length: 188 Bit Score: 82.11 E-value: 2.18e-19

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 487749609 156 LSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLL 216
Cdd:COG2771  128 LTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGLI 188

PRK10840

transcriptional regulator RcsB; Provisional

1-209

3.43e-19

transcriptional regulator RcsB; Provisional

Pssm-ID: 182771 [Multi-domain] Cd Length: 216 Bit Score: 82.19 E-value: 3.43e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPpGE---SGLIATSKISESFPETK 77
Cdd:PRK10840   4 MNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMP-GDkygDGITLIKYIKRHFPSLS 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  78 ILILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGEtyvdmKLTTSLVNEFVnqsqtDEVSPSSDPFKILS 157
Cdd:PRK10840  83 IIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGK-----KFTPESVSRLL-----EKISAGGYGDKRLS 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 487749609 158 KRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEY 209
Cdd:PRK10840 153 PKESEVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNY 204

REC

cd00156

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...

5-104

3.46e-19

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: 78.81 E-value: 3.46e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   5 IADDHAVVRTGFSMILnyQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILTMF 84
Cdd:cd00156    2 IVDDDPAIRELLKSLL--EREGYEVDTAADGEEALELLREERPDLVLLDLMM-PGMDGLELLRKLRELPPDIPVIVLTAK 78

                         90       100
                 ....*....|....*....|
gi 487749609  85 DDEEYLFHVLKSGAKGYILK 104
Cdd:cd00156   79 ADEEDAVRALELGADDYLVK 98

GerE

COG5905

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...

147-217

4.09e-19

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: 78.08 E-value: 4.09e-19

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 487749609 147 SPSSDPFKILSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLLE 217
Cdd:COG5905    4 SSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLS 74

LuxR_C_like

cd06170

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...

156-212

4.30e-19

Pssm-ID: 99777 [Multi-domain] Cd Length: 57 Bit Score: 77.19 E-value: 4.30e-19

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 487749609 156 LSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALK 212
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57

PleD

COG3706

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...

1-125

8.22e-19

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: 79.95 E-value: 8.22e-19

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKI--SESFPETKI 78
Cdd:COG3706    2 ARILVVDDDPTNRKLLRRLLE-AAGYEVV-EAADGEEALELLQEHRPDLILLDLEM-PDMDGLELCRRLraDPRTADIPI 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 487749609  79 LILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV--YQGETYV 125
Cdd:COG3706   79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVarYGGEEFA 127

CheY

COG0784

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...

1-118

1.22e-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: 78.35 E-value: 1.22e-18

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKI--SESFPETKI 78
Cdd:COG0784    6 KRILVVDDNPDNRELLRRLLE-RLGYEVT-TAEDGAEALELLRAGPPDLILLDINM-PGMDGLELLRRIraLPRLPDIPI 82

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 487749609  79 LILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV 118
Cdd:COG0784   83 IALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRL 122

CitB

COG4565

DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...

1-104

1.34e-17

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

Pssm-ID: 443622 [Multi-domain] Cd Length: 138 Bit Score: 75.78 E-value: 1.34e-17

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPPGeSGLIATSKISESFPETKILI 80
Cdd:COG4565    4 IRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDG-DGLELLRELRARGPDVDVIV 82

                         90       100
                 ....*....|....*....|....
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:COG4565   83 ITAARDPETVREALRAGVVDYLIK 106

Spo0A

COG5801

Stage 0 sporulation initiation regulator Spo0A (response regulator, REC-HTH domains) [Cell ...

1-104

4.24e-16

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: 74.45 E-value: 4.24e-16

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVvrtgFSMIL----NYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPET 76
Cdd:COG5801    5 IKVLIADDNRE----FCELLeeylSSQPDMEVVGVAYNGLEALELIEEKKPDVVILDIIM-PHLDGLGVLEKLREMNLEK 79

                         90       100       110
                 ....*....|....*....|....*....|
gi 487749609  77 --KILILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:COG5801   80 rpKVIMLTAFGQEDITQRAVELGADYYILK 109

LytT

COG3279

DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...

1-120

7.64e-16

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

Pssm-ID: 442510 [Multi-domain] Cd Length: 235 Bit Score: 73.31 E-value: 7.64e-16

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILI 80
Cdd:COG3279    2 MKILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKPDLVFLDIQM-PGLDGFELARQLRELDPPPPIIF 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 487749609  81 LTMFDdeEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQ 120
Cdd:COG3279   81 TTAYD--EYALEAFEVNAVDYLLKPIDEERLAKALEKAKE 118

RpfG

COG3437

Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...

1-118

9.53e-16

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: 72.89 E-value: 9.53e-16

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKI--SESFPETKI 78
Cdd:COG3437    7 PTVLIVDDDPENLELLRQLLR-TLGYDVV-TAESGEEALELLLEAPPDLILLDVRM-PGMDGFELLRLLraDPSTRDIPV 83

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 487749609  79 LILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV 118
Cdd:COG3437   84 IFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNA 123

PRK00742

chemotaxis-specific protein-glutamate methyltransferase CheB;

1-82

3.36e-15

chemotaxis-specific protein-glutamate methyltransferase CheB;

Pssm-ID: 234828 [Multi-domain] Cd Length: 354 Bit Score: 72.88 E-value: 3.36e-15

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPeTKILI 80
Cdd:PRK00742   4 IRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLNPDVITLDVEM-PVMDGLDALEKIMRLRP-TPVVM 81


                 ....*
gi 487749609  81 ---LT 82
Cdd:PRK00742  82 vssLT 86

REC_Spo0A

cd17561

phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...

2-104

4.64e-15

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

Pssm-ID: 381109 [Multi-domain] Cd Length: 108 Bit Score: 68.40 E-value: 4.64e-15

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPPGEsGLIATSKISESF--PETKIL 79
Cdd:cd17561    3 KVLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLD-GIGVLEKLRRMRleKRPKII 81

                         90       100
                 ....*....|....*....|....*
gi 487749609  80 ILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd17561   82 MLTAFGQEDITQRAVELGASYYILK 106

REC_PdtaR-like

cd19932

phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...

1-117

1.28e-14

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: 67.44 E-value: 1.28e-14

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPPGEsGLIATSKISESFPeTKILI 80
Cdd:cd19932    1 VRVLIAEDEALIRMDLREMLE-EAGYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLD-GIEAAKIITSENI-APIVL 77

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRT 117
Cdd:cd19932   78 LTAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIEM 114

AmiR

COG3707

Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...

1-118

1.42e-14

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

Pssm-ID: 442921 [Multi-domain] Cd Length: 194 Bit Score: 69.22 E-value: 1.42e-14

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETkILI 80
Cdd:COG3707    4 LRVLVVDDEPLRRADLREGLR-EAGYEVVAEAADGEDAVELVRELKPDLVIVDIDM-PDRDGLEAARQISEERPAP-VIL 80

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV 118
Cdd:COG3707   81 LTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALELA 118

REC_OmpR_MtPhoP-like

cd17615

phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...

2-118

4.09e-14

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: 66.22 E-value: 4.09e-14

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNYQEdmEVVATAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESFPETKILIL 81
Cdd:cd17615    1 RVLVVDDEPNITELLSMALRYEG--WDVETAADGAEALAAAREFRPDAVVLDI-MLPDMDGLEVLRRLRADGPDVPVLFL 77

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV 118
Cdd:cd17615   78 TAKDSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRAL 114

REC_OmpR

cd17574

phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...

5-104

4.94e-14

phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins are one of the most widespread transcriptional regulators. OmpR family members contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domain. They are involved in the control of environmental stress tolerance (such as the oxidative, osmotic and acid stress response), motility, virulence, outer membrane biogenesis and other processes. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381116 [Multi-domain] Cd Length: 99 Bit Score: 65.12 E-value: 4.94e-14

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   5 IADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILTMF 84
Cdd:cd17574    2 VVEDDEEIAELLSDYLE-KEGYEVD-TAADGEEALELAREEQPDLIILDVML-PGMDGFEVCRRLREKGSDIPIIMLTAK 78

                         90       100
                 ....*....|....*....|
gi 487749609  85 DDEEYLFHVLKSGAKGYILK 104
Cdd:cd17574   79 DEEEDKVLGLELGADDYITK 98

REC_TrrA-like

cd17554

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...

1-107

1.37e-13

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: 64.55 E-value: 1.37e-13

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILnyQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILI 80
Cdd:cd17554    1 KKILVVDDEENIRELYKEEL--EDEGYEVVTAGNGEEALEKLESEDPDLVILDIKM-PGMDGLETLRKIREKKPDLPVII 77

                         90       100
                 ....*....|....*....|....*..
gi 487749609  81 LTMFDDEEYLFHVLKSGAkgYILKNSP 107
Cdd:cd17554   78 CTAYSEYKSDFSSWAADA--YVVKSSD 102

MalT

COG2909

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

166-217

4.72e-13

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

Pssm-ID: 442153 [Multi-domain] Cd Length: 184 Bit Score: 64.73 E-value: 4.72e-13

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 487749609 166 LIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLLE 217
Cdd:COG2909  133 LLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGLLA 184

PRK12555

chemotaxis-specific protein-glutamate methyltransferase CheB;

1-83

5.40e-13

chemotaxis-specific protein-glutamate methyltransferase CheB;

Pssm-ID: 237135 [Multi-domain] Cd Length: 337 Bit Score: 66.83 E-value: 5.40e-13

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPPGEsGLIATSKISESFPeTKILI 80
Cdd:PRK12555   1 MRIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMD-GVEATRRIMAERP-CPILI 78


                 ...
gi 487749609  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; ...

3-116

1.68e-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: 61.78 E-value: 1.68e-12

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd17532    1 ALIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELKPDVVFLDIQM-PGLDGLELAKKLSKLAKPPLIVFVT 79

                         90       100       110
                 ....*....|....*....|....*....|....
gi 487749609  83 MFDdeEYLFHVLKSGAKGYILKNSPDEQLILAVR 116
Cdd:cd17532   80 AYD--EYAVEAFELNAVDYLLKPFSEERLAEALA 111

PRK11361

acetoacetate metabolism transcriptional regulator AtoC;

2-120

3.89e-12

acetoacetate metabolism transcriptional regulator AtoC;

Pssm-ID: 183099 [Multi-domain] Cd Length: 457 Bit Score: 64.48 E-value: 3.89e-12

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNYQeDMEVVAtAADGVEAYQKVLEHRPDVLILDLSMPPgESGLIATSKISESFPETKILIL 81
Cdd:PRK11361   6 RILIVDDEDNVRRMLSTAFALQ-GFETHC-ANNGRTALHLFADIHPDVVLMDIRMPE-MDGIKALKEMRSHETRTPVILM 82

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQ 120
Cdd:PRK11361  83 TAYAEVETAVEALRCGAFDYVIKPFDLDELNLIVQRALQ 121

REC

smart00448

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...

1-57

4.41e-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: 56.04 E-value: 4.41e-11

                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 487749609     1 MKIVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMP 57
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLE-KEGYEVD-EATDGEEALELLKEEKPDLILLDIMMP 55

REC_OmpR_PrrA-like

cd17627

phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...

3-116

1.15e-10

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: 57.01 E-value: 1.15e-10

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYqEDMEVvATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd17627    1 ILVVDDDRAVRESLRRSLRF-EGYEV-ETAVDGAEALRVISGNRPDAVVLDVMM-PRLDGLEVCRRLRAAGNDLPILVLT 77

                         90       100       110
                 ....*....|....*....|....*....|....
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVR 116
Cdd:cd17627   78 ARDSVSDRVAGLDAGADDYLVKPFALEELLARVR 111

REC_D1_PleD-like

cd17538

first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...

2-104

3.73e-10

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: 55.20 E-value: 3.73e-10

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESfPETK---I 78
Cdd:cd17538    1 KILVVDDEPANRELLEALLS-AEGYEVL-TADSGQEALALAEEELPDLILLDVMM-PGMDGFEVCRRLKED-PETRhipV 76

                         90       100
                 ....*....|....*....|....*.
gi 487749609  79 LILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd17538   77 IMITALDDREDRIRGLEAGADDFLSK 102

REC_DC-like

cd17534

phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...

1-115

5.54e-10

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: 55.11 E-value: 5.54e-10

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILnyqEDM--EVVATAADGVEAYQKVLEHRPDVLILDLSMPPGESGLIATSKISESFPeTKI 78
Cdd:cd17534    1 KKILIVEDEAIIALDLKEIL---ESLgyEVVGIADSGEEAIELAEENKPDLILMDINLKGDMDGIEAAREIREKFD-IPV 76

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 487749609  79 LILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAV 115
Cdd:cd17534   77 IFLTAYSDEETLERAKETNPYGYLVKPFNERELKAAI 113

REC_CheY4-like

cd17562

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...

2-118

6.34e-10

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

Pssm-ID: 381110 [Multi-domain] Cd Length: 118 Bit Score: 55.00 E-value: 6.34e-10

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMPPGES-GLIATSKISESFPETKILI 80
Cdd:cd17562    2 KILAVDDSASIRQMVSFTLR-GAGYEVV-EAADGRDALSKAQSKKFDLIITDQNMPNMDGiELIKELRKLPAYKFTPILM 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV 118
Cdd:cd17562   80 LTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117

REC_2_DhkD-like

cd17580

second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...

3-62

1.74e-09

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

Pssm-ID: 381118 [Multi-domain] Cd Length: 112 Bit Score: 53.62 E-value: 1.74e-09

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILnYQEDMEVvATAADGVEAYQKVLEHRPDVLILDLSMpPGESG 62
Cdd:cd17580    1 ILVVDDNEDAAEMLALLL-ELEGAEV-TTAHSGEEALEAAQRFRPDVILSDIGM-PGMDG 57

REC_RpfG-like

cd17551

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...

1-104

1.92e-09

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: 53.60 E-value: 1.92e-09

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAaDGVEAYQKVLEHRPDVLILDLSMpPGESGL--IATSKISESFPETKI 78
Cdd:cd17551    1 MRILIVDDNPTNLLLLEALLRSAGYLEVVSFT-DPREALAWCRENPPDLILLDYMM-PGMDGLefIRRLRALPGLEDVPI 78

                         90       100
                 ....*....|....*....|....*.
gi 487749609  79 LILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd17551   79 VMITADTDREVRLRALEAGATDFLTK 104

fixJ

PRK09390

response regulator FixJ; Provisional

4-211

2.20e-09

response regulator FixJ; Provisional

Pssm-ID: 181815 [Multi-domain] Cd Length: 202 Bit Score: 55.01 E-value: 2.20e-09

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   4 VIADDHAVvRTGFSMILNyQEDMEVV--ATAADGVEAYQKVlehRPDVLILDLSMPpGESG--LIATSKISES-FPetkI 78
Cdd:PRK09390   8 VVDDDEAM-RDSLAFLLD-SAGFEVRlfESAQAFLDALPGL---RFGCVVTDVRMP-GIDGieLLRRLKARGSpLP---V 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  79 LILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQgetyvdmklttSLVNEFVNQSQTDEVSpssDPFKILSK 158
Cdd:PRK09390  79 IVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALA-----------QAPEAAKSEAVAADIR---ARIASLSE 144

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 487749609 159 RELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYAL 211
Cdd:PRK09390 145 RERQVMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVRMAL 197

REC_RegA-like

cd17563

phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...

1-82

3.11e-09

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: 52.83 E-value: 3.11e-09

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVvrtgFSMILnyQEDME----VVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPET 76
Cdd:cd17563    1 KSLLLVDDDEV----FAERL--ARALErrgfEVETAHSVEEALALAREEKPDYAVLDLRL-GGDSGLDLIPPLRALQPDA 73


                 ....*.
gi 487749609  77 KILILT 82
Cdd:cd17563   74 RIVVLT 79

REC_DivK-like

cd17548

phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...

2-104

5.16e-09

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

Pssm-ID: 381100 [Multi-domain] Cd Length: 115 Bit Score: 52.16 E-value: 5.16e-09

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILN---YQedmevVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESfPETK- 77
Cdd:cd17548    1 KILIVEDNPLNMKLARDLLEsagYE-----VLEAADGEEALEIARKEKPDLILMDIQL-PGMDGLEATRLLKED-PATRd 73

                         90       100       110
                 ....*....|....*....|....*....|..
gi 487749609  78 --ILILT---MFDDEEylfHVLKSGAKGYILK 104
Cdd:cd17548   74 ipVIALTayaMKGDRE---KILEAGCDGYISK 102

REC_RssB-like

cd17555

phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...

2-104

1.45e-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: 51.05 E-value: 1.45e-08

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMilnYQEDME-VVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILI 80
Cdd:cd17555    2 TILVIDDDEVVRESIAA---YLEDSGfQVLQAADGRQGLELFRSEQPDLVLCDLRM-PEMDGLEVLKQITKESPDTPVIV 77

                         90       100
                 ....*....|....*....|....
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd17555   78 VSGAGVMSDAVEALRLGAWDYLTK 101

COG4567

DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...

29-116

4.29e-08

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: 51.07 E-value: 4.29e-08

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILTMFDDEEYLFHVLKSGAKGYILKNSPD 108
Cdd:COG4567   31 VTTAASVEEALALLEQAPPDYAVLDLRL-GDGSGLDLIEALRERDPDARIVVLTGYASIATAVEAIKLGADDYLAKPADA 109


                 ....*...
gi 487749609 109 EQLILAVR 116
Cdd:COG4567  110 DDLLAALE 117

PRK11475

DNA-binding transcriptional activator BglJ; Provisional

36-210

5.52e-08

DNA-binding transcriptional activator BglJ; Provisional

Pssm-ID: 236915 [Multi-domain] Cd Length: 207 Bit Score: 51.28 E-value: 5.52e-08

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  36 VEAYQKVLEHRP-DVLILDLSMPPGE--SGLIATSKISESFPETKILILTMFDDEEYLF-HVLKSGAKGYILKNSP---- 107
Cdd:PRK11475  26 QSSFQDAMSRISfSAVIFSLSAMRSErrEGLSCLTELAIKFPRMRRLVIADDDIEARLIgSLSPSPLDGVLSKASTleil 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609 108 DEQLILAVRTVYQgetyvdmkLTTSLVNE-FVNQSQTdevspssdpfkiLSKRELEILPLIAKGYGNKDIAEKLFVSVKT 186
Cdd:PRK11475 106 QQELFLSLNGVRQ--------ATDRLNNQwYINQSRM------------LSPTEREILRFMSRGYSMPQIAEQLERNIKT 165

                        170       180
                 ....*....|....*....|....
gi 487749609 187 VEAHKTHIMTKLNLKSKPELVEYA 210
Cdd:PRK11475 166 IRAHKFNVMSKLGVSSDAGLLDAA 189

REC_OmpR_kpRstA-like

cd17622

phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...

2-116

6.54e-08

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: 49.30 E-value: 6.54e-08

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTgfsMILNY--QEDMEVVaTAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESFpETKIL 79
Cdd:cd17622    2 RILLVEDDPKLAR---LIADFleSHGFNVV-VEHRGDRALEVIAREKPDAVLLDI-MLPGIDGLTLCRDLRPKY-QGPIL 75

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 487749609  80 ILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVR 116
Cdd:cd17622   76 LLTALDSDIDHILGLELGADDYVVKPVEPAVLLARLR 112

REC_GlnL-like

cd17565

phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...

3-104

1.02e-07

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: 48.42 E-value: 1.02e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd17565    1 FYIVDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQPDIVLIDLLM-PGMDGIQLVRKLKDTGSNGKFIMIS 79

                         90       100
                 ....*....|....*....|..
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd17565   80 QVSDKEMIGKAYQAGIEFFINK 101

PRK11697

two-component system response regulator BtsR;

1-104

1.78e-07

two-component system response regulator BtsR;

Pssm-ID: 236956 [Multi-domain] Cd Length: 238 Bit Score: 50.23 E-value: 1.78e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISesfPET--KI 78
Cdd:PRK11697   2 IKVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQM-PRISGLELVGMLD---PEHmpYI 77

                         90       100
                 ....*....|....*....|....*.
gi 487749609  79 LILTMFDdeEYLFHVLKSGAKGYILK 104
Cdd:PRK11697  78 VFVTAFD--EYAIKAFEEHAFDYLLK 101

REC_CheC-like

cd17593

phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...

1-57

2.67e-07

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

Pssm-ID: 381124 [Multi-domain] Cd Length: 117 Bit Score: 47.53 E-value: 2.67e-07

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 487749609   1 MKIVIADDHAVVRTGFSMILNYQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMP 57
Cdd:cd17593    1 MKVLICDDSSMARKQLARALPADWDVEIT-FAENGEEALEILREGRIDVLFLDLTMP 56

REC_NtrX-like

cd17550

phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...

3-82

3.22e-07

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: 47.49 E-value: 3.22e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNYqEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd17550    1 ILIVDDEEDIRESLSGILED-EGYEVD-TAADGEEALKLIKERRPDLVLLDIWL-PDMDGLELLKEIKEKYPDLPVIMIS 77

REC_OmpR_PhoB

cd17618

phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...

2-118

5.18e-07

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

Pssm-ID: 381133 [Multi-domain] Cd Length: 118 Bit Score: 46.86 E-value: 5.18e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNyQEDMEVVAtAADGVEAYQKVLEHRPDVLILDLsMPPGESG--LIATSKISESFPETKIL 79
Cdd:cd17618    2 TILIVEDEPAIREMIAFNLE-RAGFDVVE-AEDAESAVNLIVEPRPDLILLDW-MLPGGSGiqFIRRLKRDEMTRDIPII 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 487749609  80 ILTMFDDEEYLFHVLKSGAKGYILKN-SPDEqLILAVRTV 118
Cdd:cd17618   79 MLTARGEEEDKVRGLEAGADDYITKPfSPRE-LVARIKAV 117

REC_OmpR_EcPhoP-like

cd19934

phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...

28-116

8.35e-07

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: 46.12 E-value: 8.35e-07

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  28 VVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILTMFDDEEYLFHVLKSGAKGYILKNSP 107
Cdd:cd19934   24 VVDVAEDGEEALFQGEEEPYDLVVLDLGL-PGMDGLSVLRRWRSEGRATPVLILTARDSWQDKVEGLDAGADDYLTKPFH 102


                 ....*....
gi 487749609 108 DEQLILAVR 116
Cdd:cd19934  103 IEELLARLR 111

REC_OmpR_MtrA-like

cd17626

phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...

2-117

1.16e-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: 45.92 E-value: 1.16e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNyQEDMEVvATAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESfPETKILIL 81
Cdd:cd17626    2 RILVVDDDAALAEMIGIVLR-GEGFDP-AFCGDGTQALAAFREVRPDLVLLDL-MLPGIDGIEVCRQIRAE-SGVPIVML 77

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRT 117
Cdd:cd17626   78 TAKSDTVDVVLGLESGADDYVAKPFKPKELVARIRA 113

REC_CheY_CheY3

cd19923

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...

1-104

1.48e-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: 45.79 E-value: 1.48e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPPgESGLIATSKI--SESFPETKI 78
Cdd:cd19923    1 MKVLVVDDFSTMRRIIKNLLK-ELGFNNVEEAEDGVDALEKLKAGGFDFVITDWNMPN-MDGLELLKTIraDGALSHLPV 78

                         90       100
                 ....*....|....*....|....*.
gi 487749609  79 LILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd19923   79 LMVTAEAKKENVIAAAQAGVNNYIVK 104

REC_RR468-like

cd17552

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...

2-104

1.59e-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: 45.62 E-value: 1.59e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADD----HAVVRTGFSMILNYQedmevVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGlIATSKISESFPETK 77
Cdd:cd17552    3 RILVIDDeediREVVQACLEKLAGWE-----VLTASSGQEGLEKAATEQPDAILLDVMM-PDMDG-LATLKKLQANPETQ 75

                         90       100       110
                 ....*....|....*....|....*....|..
gi 487749609  78 ---ILILT--MFDDEEYLFHVLksGAKGYILK 104
Cdd:cd17552   76 sipVILLTakAQPSDRQRFASL--GVAGVIAK 105

PRK10100

transcriptional regulator CsgD;

108-210

2.33e-06

transcriptional regulator CsgD;

Pssm-ID: 182241 [Multi-domain] Cd Length: 216 Bit Score: 46.79 E-value: 2.33e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609 108 DEQLILAVRTVYQGETYVDMKLTTSLVNEFVN-QSQTDEVSPssdpfkiLSKRELEILPLIAKGYGNKDIAEKLFVSVKT 186
Cdd:PRK10100 114 QERVVNGLQGVLRGECYFTQKLASYLITHSGNyRYNSTESAL-------LTHREKEILNKLRIGASNNEIARSLFISENT 186

                         90       100
                 ....*....|....*....|....
gi 487749609 187 VEAHKTHIMTKLNLKSKPELVEYA 210
Cdd:PRK10100 187 VKTHLYNLFKKIAVKNRTQAVSWA 210

orf27

CHL00148

Ycf27; Reviewed

1-109

2.62e-06

Ycf27; Reviewed

Pssm-ID: 214376 [Multi-domain] Cd Length: 240 Bit Score: 46.63 E-value: 2.62e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVR----TGFSMIlNYQedmevVATAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKI-SESfpE 75
Cdd:CHL00148   7 EKILVVDDEAYIRkileTRLSII-GYE-----VITASDGEEALKLFRKEQPDLVILDV-MMPKLDGYGVCQEIrKES--D 77

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 487749609  76 TKILILTMFDDEEYLFHVLKSGAKGYILKN-SPDE 109
Cdd:CHL00148  78 VPIIMLTALGDVSDRITGLELGADDYVVKPfSPKE 112

REC_OmpR_KdpE-like

cd17620

phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...

3-104

3.10e-06

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: 44.08 E-value: 3.10e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMIL---NYQedmevVATAADGVEAYQKVLEHRPDVLILDLSMPPGEsGLIATSKISEsFPETKIL 79
Cdd:cd17620    1 ILVIEDEPQIRRFLRTALeahGYR-----VFEAETGQEGLLEAATRKPDLIILDLGLPDMD-GLEVIRRLRE-WSAVPVI 73

                         90       100
                 ....*....|....*....|....*
gi 487749609  80 ILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd17620   74 VLSARDEESDKIAALDAGADDYLTK 98

PEP_resp_reg

TIGR02915

PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...

29-98

4.09e-06

Pssm-ID: 274348 [Multi-domain] Cd Length: 445 Bit Score: 46.67 E-value: 4.09e-06

                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 487749609   29 VATAADGVEAYQKVLEHRPDVLILDLSMPP----GESGLIATSKISESFPETKILILTMFDDEEYLFHVLKSGA 98
Cdd:TIGR02915  23 LAVAADRESAIALVRRHEPAVVTLDLGLPPdadgASEGLAALQQILAIAPDTKVIVITGNDDRENAVKAIGLGA 96

REC_HupR

cd17596

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...

3-116

4.90e-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: 44.66 E-value: 4.90e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILnyQEDMEVvATAADGVEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETKILILT 82
Cdd:cd17596    3 ILVVDDEVRSLEALRRTL--EEDFDV-LTAASAEEALAILEEEWVQVILCDQRMP-GTTGVEFLKEVRERWPEVVRIIIS 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 487749609  83 MFDDEEYLFHVL-KSGAKGYILKNSPDEQLILAVR 116
Cdd:cd17596   79 GYTDSEDIIAGInEAGIYQYLTKPWHPDQLLLTVR 113

REC_OmpR_VirG

cd17594

phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...

2-104

6.08e-06

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: 43.97 E-value: 6.08e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNyqEDMEVVATAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESFPETKILIL 81
Cdd:cd17594    1 HVLVVDDDAAMRHLLILYLR--ERGFDVTAAADGAEEARLMLHRRVDLVLLDL-RLGQESGLDLLRTIRARSDVPIIIIS 77

                         90       100
                 ....*....|....*....|...
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd17594   78 GDRRDEIDRVVGLELGADDYLAK 100

REC_OmpR_ArcA_TorR-like

cd17619

phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...

3-104

7.50e-06

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: 43.53 E-value: 7.50e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNyQEDMEVVAtAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESfPETKILILT 82
Cdd:cd17619    3 ILIVEDEPVTRATLKSYFE-QEGYDVSE-AGDGEEMRQILARQDIDLVLLDINL-PGKDGLSLTRELREQ-SEVGIILVT 78

                         90       100
                 ....*....|....*....|..
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd17619   79 GRDDEVDRIVGLEIGADDYVTK 100

REC_citrate_TCS

cd19925

phosphoacceptor receiver (REC) domain of citrate family two-component system response ...

2-104

7.67e-06

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: 43.77 E-value: 7.67e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILIL 81
Cdd:cd19925    2 NVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYL-PDGNGLDLLRELRAAGHDVDVIVV 80

                         90       100
                 ....*....|....*....|...
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd19925   81 TAANDVETVREALRLGVVDYLIK 103

REC_HupR-like

cd17569

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...

2-116

9.62e-06

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

Pssm-ID: 381113 [Multi-domain] Cd Length: 118 Bit Score: 43.16 E-value: 9.62e-06

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILnYQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILIL 81
Cdd:cd17569    2 TILLVDDEPNILKALKRLL-RREGYEVL-TATSGEEALEILKQEPVDVVISDQRM-PGMDGAELLKRVRERYPDTVRILL 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 487749609  82 TMFDDEEYLFHVLKSGA-KGYILKNSPDEQLILAVR 116
Cdd:cd17569   79 TGYADLDAAIEAINEGEiYRFLTKPWDDEELKETIR 114

REC_NtrC

cd19919

phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...

2-104

1.01e-05

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: 43.42 E-value: 1.01e-05

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNyQEDMEVvATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILIL 81
Cdd:cd19919    2 TVWIVDDDSSIRWVLERALA-GAGLTV-TSFENAQEALAALASSQPDVLISDIRM-PGMDGLALLAQIKQRHPDLPVIIM 78

                         90       100
                 ....*....|....*....|...
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd19919   79 TAHSDLDSAVSAYQGGAFEYLPK 101

PRK04841

HTH-type transcriptional regulator MalT;

156-216

1.23e-05

HTH-type transcriptional regulator MalT;

Pssm-ID: 235315 [Multi-domain] Cd Length: 903 Bit Score: 45.32 E-value: 1.23e-05

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 487749609 156 LSKRELEILPLIAKGYGNKDIAEKLFVSVKTVeahKTHIMT---KLNLKSKPELVEYAlkKKLL 216
Cdd:PRK04841 839 LTQREWQVLGLIYSGYSNEQIAGELDVAATTI---KTHIRNlyqKLGIAHRQEAVQHA--QDLL 897

REC_OmpR_YycF-like

cd17614

phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...

3-116

1.68e-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: 42.80 E-value: 1.68e-05

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNyQEDMEVVaTAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESFpETKILILT 82
Cdd:cd17614    1 ILVVDDEKPISDILKFNLT-KEGYEVV-TAYDGREALEKVEEEQPDLILLDL-MLPEKDGLEVCREVRKTS-NVPIIMLT 76

                         90       100       110
                 ....*....|....*....|....*....|....
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVR 116
Cdd:cd17614   77 AKDSEVDKVLGLELGADDYVTKPFSNRELLARVK 110

PRK10816

two-component system response regulator PhoP;

1-163

1.91e-05

two-component system response regulator PhoP;

Pssm-ID: 182755 [Multi-domain] Cd Length: 223 Bit Score: 43.96 E-value: 1.91e-05

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyqEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILI 80
Cdd:PRK10816   1 MRVLVVEDNALLRHHLKVQLQ--DAGHQVDAAEDAKEADYYLNEHLPDIAIVDLGL-PDEDGLSLIRRWRSNDVSLPILV 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVyqgetyvdMKLTTSLVNEFVnqsqtdevspSSDPFKI-LSKR 159
Cdd:PRK10816  78 LTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQAL--------MRRNSGLASQVI----------SLPPFQVdLSRR 139


                 ....
gi 487749609 160 ELEI 163
Cdd:PRK10816 140 ELSI 143

REC_OmpR_CusR-like

cd19935

phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...

28-104

2.95e-05

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

Pssm-ID: 381162 [Multi-domain] Cd Length: 100 Bit Score: 41.66 E-value: 2.95e-05

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 487749609  28 VVATAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESFPETKILILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd19935   24 AVDVAYDGEDGLHLALTNEYDLIILDV-MLPGLDGLEVLRRLRAAGKQTPVLMLTARDSVEDRVKGLDLGADDYLVK 99

REC_OmpR_DrrD-like

cd17625

phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...

29-118

7.48e-05

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

Pssm-ID: 381140 [Multi-domain] Cd Length: 115 Bit Score: 40.67 E-value: 7.48e-05

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESFPETKILILTMFDDEEYLFHVLKSGAKGYILKNSPD 108
Cdd:cd17625   24 VDVCFDGEEGLEYALSGIYDLIILDI-MLPGMDGLEVLKSLREEGIETPVLLLTALDAVEDRVKGLDLGADDYLPKPFSL 102

                         90
                 ....*....|
gi 487749609 109 EQLILAVRTV 118
Cdd:cd17625  103 AELLARIRAL 112

PRK10365

sigma-54-dependent response regulator transcription factor ZraR;

29-104

9.32e-05

sigma-54-dependent response regulator transcription factor ZraR;

Pssm-ID: 182412 [Multi-domain] Cd Length: 441 Bit Score: 42.71 E-value: 9.32e-05

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDLSMppGESGLIATSK-ISESFPETKILILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:PRK10365  32 VALANSGRQALEQVREQVFDLVLCDVRM--AEMDGIATLKeIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIK 106

REC_hyHK

cd17598

phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...

29-114

1.23e-04

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: 40.39 E-value: 1.23e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDLSMPPGES-GLIATSKISESFPETKILILTMFDDEEYLFHVLKSGAKGYILKnsP 107
Cdd:cd17598   25 VQVARNGREALAMLAEHRPTLVISDIVMPEMDGyELCRKIKSDPDLKDIPVILLTTLSDPRDVIRGLECGADNFITK--P 102


                 ....*...
gi 487749609 108 -DEQLILA 114
Cdd:cd17598  103 yDEKYLLS 110

REC_OmpR_ChvI-like

cd19936

phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...

3-104

2.22e-04

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: 38.97 E-value: 2.22e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNyQEDMEVvATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESfPETKILILT 82
Cdd:cd19936    1 IALVDDDRNILTSVSMALE-AEGFSV-ETYTDGASALDGLNARPPDLAILDIKM-PRMDGMELLQRLRQK-STLPVIFLT 76

                         90       100
                 ....*....|....*....|..
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd19936   77 SKDDEIDEVFGLRMGADDYITK 98

REC_OmpR_BaeR-like

cd19938

phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...

33-118

2.23e-04

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

Pssm-ID: 381165 [Multi-domain] Cd Length: 114 Bit Score: 39.28 E-value: 2.23e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  33 ADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKIsESFPETKILILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLI 112
Cdd:cd19938   30 AHGDQVLPYVRHTPPDLILLDL-MLPGTDGLTLCREI-RRFSDVPIIMVTARVEEIDRLLGLELGADDYICKPYSPREVV 107


                 ....*.
gi 487749609 113 LAVRTV 118
Cdd:cd19938  108 ARVKAI 113

REC_OmpR_BfmR-like

cd19939

phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...

29-118

3.08e-04

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: 39.28 E-value: 3.08e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESFpETKILILTMFDDEEYLFHVLKSGAKGYILKNSPD 108
Cdd:cd19939   26 VSVFTDGQRAVRRIIDEQPSLVVLDI-MLPGMDGLTVCREVREHS-HVPILMLTARTEEMDRVLGLEMGADDYLCKPFSP 103

                         90
                 ....*....|
gi 487749609 109 EQLILAVRTV 118
Cdd:cd19939  104 RELLARVRAL 113

REC_Rcp-like

cd17557

phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...

29-118

3.76e-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: 38.94 E-value: 3.76e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  29 VATAADGVEA---------YQKVleHRPDVLILDLSMpPGESGLIATSKISESfPETK---ILILTMFDDEEYLFHVLKS 96
Cdd:cd17557   28 LHVVRDGEEAldflrgegeYADA--PRPDLILLDLNM-PRMDGFEVLREIKAD-PDLRripVVVLTTSDAEEDIERAYEL 103

                         90       100
                 ....*....|....*....|..
gi 487749609  97 GAKGYILKNSPDEQLILAVRTV 118
Cdd:cd17557  104 GANSYIVKPVDFEEFVEAIRSL 125

REC_PA4781-like

cd19920

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...

29-104

4.23e-04

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: 38.26 E-value: 4.23e-04

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDLSMpPGESG--LIATSKISESFPETKILILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd19920   25 VLVATDGQQALQRAQAEPPDLILLDVMM-PGMDGfeVCRRLKADPATRHIPVIFLTALTDTEDKVKGFELGAVDYITK 101

REC_OmpR_CpxR

cd17623

phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...

29-118

5.45e-04

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

Pssm-ID: 381138 [Multi-domain] Cd Length: 115 Bit Score: 38.44 E-value: 5.45e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDlSMPPGESGLIATSKISESfPETKILILTMFDDEEYLFHVLKSGAKGYILKNSPD 108
Cdd:cd17623   25 VRAAHDGEQGLAALLEGSPDLVVLD-VMLPKMNGLDVLKELRKT-SQVPVLMLTARGDDIDRILGLELGADDYLPKPFNP 102

                         90
                 ....*....|
gi 487749609 109 EQLILAVRTV 118
Cdd:cd17623  103 RELVARIRAI 112

REC_DctD-like

cd17549

phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...

3-116

6.70e-04

phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and similar proteins; C4-dicarboxylic acid transport protein D (DctD) is part of the two-component regulatory system DctB/DctD, which regulates C4-dicarboxylate transport via regulation of expression of the dctPQM operon and dctA. It is an activator of sigma(54)-RNA polymerase holoenzyme that uses the energy released from ATP hydrolysis to stimulate the isomerization of a closed promoter complex to an open complex capable of initiating transcription. DctD is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.

Pssm-ID: 381101 [Multi-domain] Cd Length: 130 Bit Score: 38.24 E-value: 6.70e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNyQEDMEVVAtAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd17549    1 VLLVDDDADVREALQQTLE-LAGFRVRA-FADAEEALAALSPDFPGVVISDIRM-PGMDGLELLAQIRELDPDLPVILIT 77

                         90       100       110
                 ....*....|....*....|....*....|....
gi 487749609  83 MFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVR 116
Cdd:cd17549   78 GHGDVPMAVEAMRAGAYDFLEKPFDPERLLDVVR 111

glnG

PRK10923

nitrogen regulation protein NR(I); Provisional

2-180

7.07e-04

nitrogen regulation protein NR(I); Provisional

Pssm-ID: 182842 [Multi-domain] Cd Length: 469 Bit Score: 39.85 E-value: 7.07e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNyQEDMEVvATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILIL 81
Cdd:PRK10923   5 IVWVVDDDSSIRWVLERALA-GAGLTC-TTFENGNEVLEALASKTPDVLLSDIRM-PGMDGLALLKQIKQRHPMLPVIIM 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILKnsP---DEQLILAVRTVYQgetYVDMKLTTslvNEFVNQSQTD---EVSPSSDPFKI 155
Cdd:PRK10923  82 TAHSDLDAAVSAYQQGAFDYLPK--PfdiDEAVALVERAISH---YQEQQQPR---NIQVNGPTTDiigEAPAMQDVFRI 153

                        170       180
                 ....*....|....*....|....*...
gi 487749609 156 ---LSKRELEILPLIAKGYGNKDIAEKL 180
Cdd:PRK10923 154 igrLSRSSISVLINGESGTGKELVAHAL 181

PRK10188

transcriptional regulator SdiA;

156-210

8.90e-04

transcriptional regulator SdiA;

Pssm-ID: 182292 [Multi-domain] Cd Length: 240 Bit Score: 39.38 E-value: 8.90e-04

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 487749609 156 LSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYA 210
Cdd:PRK10188 180 FSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQIACYA 234

REC_OmpR_BsPhoP-like

cd19937

phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...

29-118

9.23e-04

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

Pssm-ID: 381164 [Multi-domain] Cd Length: 116 Bit Score: 37.64 E-value: 9.23e-04

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKI--SESFPETKILILTMFDDEEYLFHVLKSGAKGYILKN- 105
Cdd:cd19937   24 VVTAYDGEEALKRAKDEKPDLIILDL-MLPGIDGLEVCRILrsDPKTSSIPIIMLTAKGEEFDKVLGLELGADDYITKPf 102

                         90
                 ....*....|...
gi 487749609 106 SPDEqLILAVRTV 118
Cdd:cd19937  103 SPRE-LLARVKAV 114

PRK10701

DNA-binding transcriptional regulator RstA; Provisional

2-107

1.02e-03

DNA-binding transcriptional regulator RstA; Provisional

Pssm-ID: 236738 [Multi-domain] Cd Length: 240 Bit Score: 38.85 E-value: 1.02e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRtgfSMILNY--QEDMEVVATAAdGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESFPeTKIL 79
Cdd:PRK10701   3 KIVFVEDDAEVG---SLIAAYlaKHDIDVTVEPR-GDRAEATILREQPDLVLLDI-MLPGKDGMTICRDLRPKWQ-GPIV 76

                         90       100       110
                 ....*....|....*....|....*....|
gi 487749609  80 ILTMFDDEeyLFHVL--KSGAKGYILKNSP 107
Cdd:PRK10701  77 LLTSLDSD--MNHILalEMGACDYILKTTP 104

REC_OmpR_PmrA-like

cd17624

phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...

32-104

1.22e-03

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

Pssm-ID: 381139 [Multi-domain] Cd Length: 115 Bit Score: 37.46 E-value: 1.22e-03

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 487749609  32 AADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILTMFDDEEYLFHVLKSGAKGYILK 104
Cdd:cd17624   28 VRTGAEAEAALASGPYDLVILDLGL-PDGDGLDLLRRWRRQGQSLPVLILTARDGVDDRVAGLDAGADDYLVK 99

PRK10161

phosphate response regulator transcription factor PhoB;

2-150

1.33e-03

phosphate response regulator transcription factor PhoB;

Pssm-ID: 182277 [Multi-domain] Cd Length: 229 Bit Score: 38.55 E-value: 1.33e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMILNyQEDMEVVAtAADGVEAYQKVLEHRPDVLILDLsMPPGESGL--IATSKISESFPETKIL 79
Cdd:PRK10161   4 RILVVEDEAPIREMVCFVLE-QNGFQPVE-AEDYDSAVNQLNEPWPDLILLDW-MLPGGSGIqfIKHLKRESMTRDIPVV 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 487749609  80 ILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVyqgetyvdMKLTTSLVNEFVNQSQTDEVSPSS 150
Cdd:PRK10161  81 MLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAV--------MRRISPMAVEEVIEMQGLSLDPTS 143

PRK09836

DNA-binding transcriptional activator CusR; Provisional

1-168

1.39e-03

DNA-binding transcriptional activator CusR; Provisional

Pssm-ID: 182102 [Multi-domain] Cd Length: 227 Bit Score: 38.75 E-value: 1.39e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHavVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLsMPPGESGLIATSKISESFPETKILI 80
Cdd:PRK09836   1 MKLLIVEDE--KKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDI-MLPDVNGWDIVRMLRSANKGMPILL 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  81 LTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVY-QGETYVD------MKLTTSLVNEFVNQSQTdEVSPSSDPF 153
Cdd:PRK09836  78 LTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLrRGAAVIIesqfqvADLMVDLVSRKVTRSGT-RITLTSKEF 156

                        170       180
                 ....*....|....*....|
gi 487749609 154 KILS---KRELEILP--LIA 168
Cdd:PRK09836 157 TLLEfflRHQGEVLPrsLIA 176

PRK10643

two-component system response regulator PmrA;

1-121

1.56e-03

two-component system response regulator PmrA;

Pssm-ID: 182612 [Multi-domain] Cd Length: 222 Bit Score: 38.48 E-value: 1.56e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMIL---NYQEDmeVVATAAdgvEAYQKVLEHRPDVLILDLSMPpGESGLIATSKISESFPETK 77
Cdd:PRK10643   1 MKILIVEDDTLLLQGLILALqteGYACD--CASTAR---EAEALLESGHYSLVVLDLGLP-DEDGLHLLRRWRQKKYTLP 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 487749609  78 ILILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTV---YQG 121
Cdd:PRK10643  75 VLILTARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALirrHQG 121

PRK10693

two-component system response regulator RssB;

32-57

1.63e-03

two-component system response regulator RssB;

Pssm-ID: 182652 [Multi-domain] Cd Length: 303 Bit Score: 38.43 E-value: 1.63e-03

                         10        20
                 ....*....|....*....|....*.
gi 487749609  32 AADGVEAYQKVLEHRPDVLILDLSMP 57
Cdd:PRK10693   3 AANGVDALELLGGFTPDLIICDLAMP 28

PRK13557

histidine kinase; Provisional

3-87

1.64e-03

histidine kinase; Provisional

Pssm-ID: 237425 [Multi-domain] Cd Length: 540 Bit Score: 38.88 E-value: 1.64e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILnyqEDM-EVVATAADGVEAYQKVLEH-RPDVLILDLSMPPGESGLIATSKISESFPETKILI 80
Cdd:PRK13557 418 ILIVDDRPDVAELARMIL---EDFgYRTLVASNGREALEILDSHpEVDLLFTDLIMPGGMNGVMLAREARRRQPKIKVLL 494


                 ....*..
gi 487749609  81 LTMFDDE 87
Cdd:PRK13557 495 TTGYAEA 501

REC_RcNtrC-like

cd19928

phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...

3-82

2.16e-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: 36.33 E-value: 2.16e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   3 IVIADDHAVVRTGFSMILNyQEDMEVVATaADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd19928    1 ILVADDDRAIRTVLTQALG-RAGYEVRTT-GNAATLWRWVEEGEGDLVITDVVM-PDENGLDLIPRIKKARPDLPIIVMS 77

PRK11517

DNA-binding response regulator HprR;

1-172

2.22e-03

DNA-binding response regulator HprR;

Pssm-ID: 183172 [Multi-domain] Cd Length: 223 Bit Score: 37.96 E-value: 2.22e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRTGFSMILNyqEDMEVVATAADGVEAYQKVLEHRPDVLILDLsMPPGESG--LIATSKISESFPetkI 78
Cdd:PRK11517   1 MKILLIEDNQRTQEWVTQGLS--EAGYVIDAVSDGRDGLYLALKDDYALIILDI-MLPGMDGwqILQTLRTAKQTP---V 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  79 LILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGETYVDMKLTTS-LVNEFVNQSqtdeVSPSSDPFkILS 157
Cdd:PRK11517  75 ICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALNSTLEISgLRMDSVSQS----VSRDNISI-TLT 149

                        170
                 ....*....|....*
gi 487749609 158 KRELEILPLIAKGYG 172
Cdd:PRK11517 150 RKEFQLLWLLASRAG 164

REC_Spo0F-like

cd17553

phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...

2-84

2.35e-03

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

Pssm-ID: 381105 [Multi-domain] Cd Length: 117 Bit Score: 36.76 E-value: 2.35e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDhavvRTGFSMILN--YQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKIL 79
Cdd:cd17553    2 KILIVDD----QYGIRILLNevFNKEGYQTFQAANGLQALDIVTKERPDLVLLDMKI-PGMDGIEILKRMKVIDENIRVI 76


                 ....*
gi 487749609  80 ILTMF 84
Cdd:cd17553   77 IMTAY 81

REC_NtrC1-like

cd17572

phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...

29-82

2.56e-03

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

Pssm-ID: 381114 [Multi-domain] Cd Length: 121 Bit Score: 36.41 E-value: 2.56e-03

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESFPETKILILT 82
Cdd:cd17572   25 VTHVETGKEALAFLSDQPPDVVLLDLKL-PDMSGMEILKWIQERSLPTSVIVIT 77

PRK11173

two-component response regulator; Provisional

2-155

4.00e-03

two-component response regulator; Provisional

Pssm-ID: 183013 [Multi-domain] Cd Length: 237 Bit Score: 37.30 E-value: 4.00e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   2 KIVIADDHAVVRTGFSMIlnYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKISESfPETKILIL 81
Cdd:PRK11173   5 HILIVEDELVTRNTLKSI--FEAEGYDVFEATDGAEMHQILSENDINLVIMDINL-PGKNGLLLARELREQ-ANVALMFL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  82 TMFDDEEYLFHVLKSGAKGYILKN-SPDEQLI----LAVRTVYQGETYVDMKLTTSLvnEFvNQSQTDE-----VSPSSD 151
Cdd:PRK11173  81 TGRDNEVDKILGLEIGADDYITKPfNPRELTIrarnLLSRTMNLGTVSEERRSVESY--KF-NGWELDInsrslISPDGE 157


                 ....
gi 487749609 152 PFKI 155
Cdd:PRK11173 158 QYKL 161

pleD

PRK09581

response regulator PleD; Reviewed

29-140

6.13e-03

response regulator PleD; Reviewed

Pssm-ID: 236577 [Multi-domain] Cd Length: 457 Bit Score: 37.19 E-value: 6.13e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609  29 VATAADGVEAYQKVLEHRPDVLILDLSMpPGESGLIATSKIsESFPETK---ILILTMFDDEEYLFHVLKSGAKGYILKN 105
Cdd:PRK09581  29 VLTASSGAEAIAICEREQPDIILLDVMM-PGMDGFEVCRRL-KSDPATThipVVMVTALDDPEDRVRGLEAGADDFLTKP 106

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 487749609 106 SPDEQLILAVRTVY-----------QGETYVDMKLTTSLVNEFVNQ 140
Cdd:PRK09581 107 INDVALFARVKSLTrlkmvidelrlRASTNAEIGVTALMIMAYANK 152

Sig70_bacteroi1

TIGR02985

RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...

169-198

7.67e-03

Pssm-ID: 274376 [Multi-domain] Cd Length: 161 Bit Score: 35.62 E-value: 7.67e-03

                          10        20        30
                  ....*....|....*....|....*....|
gi 487749609  169 KGYGNKDIAEKLFVSVKTVEAHKTHIMTKL 198
Cdd:TIGR02985 128 EGLSNKEIAEELGISVKTVEYHITKALKFL 157

REC_LytTR_AgrA-like

cd17533

phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; ...

1-109

9.87e-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: 34.91 E-value: 9.87e-03

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487749609   1 MKIVIADDHAVVRT-------GFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPPgESGLIATSKISESF 73
Cdd:cd17533    1 MNIFILEDDKIQRVrleeiieNILKIENIEYVIELTGKTEELLEKIKERGKNGIYFLDIDIKMEE-KNGLEVAQKIRKYD 79

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 487749609  74 PETKILILTMFDDEEYLFHVLKSGAKGYILKNSPDE 109
Cdd:cd17533   80 PYAIIIFVTTHSEFAPLTFEYKVAALDFILKPLKLE 115

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