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Conserved domains on  [gi|16129184|ref|NP_415739|]
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DNA-binding transcriptional dual regulator NarL [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

two-component system response regulator NarL( domain architecture ID 11484842)

two-component system response regulator NarL binds DNA upon phosphorylation and functions as transcriptional regulator

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 1-216 1.03e-148

transcriptional regulator NarL; Provisional


:

Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 412.11  E-value: 1.03e-148
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    1 MSNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLS 80
Cdd:PRK10651   1 MSNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   81 GRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRE 160
Cdd:PRK10651  81 GRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRE 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 16129184  161 RDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
Cdd:PRK10651 161 RDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 1-216 1.03e-148

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 412.11  E-value: 1.03e-148
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    1 MSNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLS 80
Cdd:PRK10651   1 MSNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   81 GRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRE 160
Cdd:PRK10651  81 GRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRE 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 16129184  161 RDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
Cdd:PRK10651 161 RDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 9-125 1.27e-57

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: 177.93  E-value: 1.27e-57
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:cd19931   1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:cd19931  81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAAS 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 6-215 4.08e-26

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: 97.66  E-value: 4.08e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   6 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLrekslsgrivv 85
Cdd:COG2197   1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  86 fsvsnheedvvtalkrgadgyllkdmepedllkalhqaaagemvlsealtpvlaaslranratterdvnqLTPRERDILK 165
Cdd:COG2197  70 ----------------------------------------------------------------------LTPREREVLR 79

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|
gi 16129184 166 LIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERI 215
Cdd:COG2197  80 LLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGL 129
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 9-120 5.94e-24

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


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 91.44  E-value: 5.94e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184     9 ILLIDDHPMLRTGVKQLISMapDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEK--EGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|..
gi 16129184    89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAI 110
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 156-210 2.53e-14

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 64.86  E-value: 2.53e-14
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 16129184    156 LTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWV 210
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 129-191 2.83e-04

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 40.02  E-value: 2.83e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16129184   129 VLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIA-QGLPNKMIARRLDITESTVKVHV 191
Cdd:TIGR02937  84 LLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYlEGLSYKEIAEILGISVGTVKRRL 147
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 1-216 1.03e-148

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 412.11  E-value: 1.03e-148
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    1 MSNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLS 80
Cdd:PRK10651   1 MSNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   81 GRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRE 160
Cdd:PRK10651  81 GRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRE 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 16129184  161 RDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
Cdd:PRK10651 161 RDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 9-125 1.27e-57

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: 177.93  E-value: 1.27e-57
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:cd19931   1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:cd19931  81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAAS 117
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
1-214 4.49e-48

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 156.94  E-value: 4.49e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    1 MSNQEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLS 80
Cdd:PRK10403   1 MPEATPFQVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   81 GRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTpvlaASLRANRATTERD--VNQLTP 158
Cdd:PRK10403  81 AQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVN----QYLREREMFGAEEdpFSVLTE 156

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 16129184  159 RERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQER 214
Cdd:PRK10403 157 RELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATILFLQQR 212
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 9-125 1.97e-38

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: 128.78  E-value: 1.97e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:cd17535   1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:cd17535  81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK15369 PRK15369
two component system response regulator;
9-190 1.60e-29

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 109.01  E-value: 1.60e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:PRK15369   6 ILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILVLTA 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTpvlAASLRANRATTERDVNQLTPRERDILKLIA 168
Cdd:PRK15369  86 RQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALN---REAILALLNADDTNPPLLTPRERQILKLIT 162

                        170       180
                 ....*....|....*....|..
gi 16129184  169 QGLPNKMIARRLDITESTVKVH 190
Cdd:PRK15369 163 EGYTNRDIAEQLSISIKTVETH 184
PRK10360 PRK10360
transcriptional regulator UhpA;
8-190 1.74e-26

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 100.82  E-value: 1.74e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    8 TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLrEKSLSgrIVVFS 87
Cdd:PRK10360   3 TVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQL-PKGMA--TIMLS 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLsealTPVLAASLRANRAtterdvNQLTPRERDILKLI 167
Cdd:PRK10360  80 VHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYL----TPDIAIKLASGRQ------DPLTKRERQVAEKL 149

                        170       180
                 ....*....|....*....|...
gi 16129184  168 AQGLPNKMIARRLDITESTVKVH 190
Cdd:PRK10360 150 AQGMAVKEIAAELGLSPKTVHVH 172
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 6-215 4.08e-26

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: 97.66  E-value: 4.08e-26
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   6 PATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLrekslsgrivv 85
Cdd:COG2197   1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL----------- 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  86 fsvsnheedvvtalkrgadgyllkdmepedllkalhqaaagemvlsealtpvlaaslranratterdvnqLTPRERDILK 165
Cdd:COG2197  70 ----------------------------------------------------------------------LTPREREVLR 79

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|
gi 16129184 166 LIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERI 215
Cdd:COG2197  80 LLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGL 129
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 62-190 1.16e-25

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: 98.63  E-value: 1.16e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  62 MPGMNGLETLDKLREKSLSGRIVVfsVSNH--EEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAgemvLSEAltpvlA 139
Cdd:COG4566  53 MPGMSGLELQEELAARGSPLPVIF--LTGHgdVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALA----RDRA-----R 121

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 16129184 140 ASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVH 190
Cdd:COG4566 122 RAERARRAELRARLASLTPREREVLDLVVAGLSNKQIARELGISPRTVEVH 172
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 9-120 5.94e-24

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


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 91.44  E-value: 5.94e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184     9 ILLIDDHPMLRTGVKQLISMapDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEK--EGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTA 78

                          90       100       110
                  ....*....|....*....|....*....|..
gi 16129184    89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:pfam00072  79 HGDEDDAVEALEAGADDFLSKPFDPDELLAAI 110
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 8-109 3.08e-22

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: 86.75  E-value: 3.08e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:COG4753   1 KVLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILS 80

                        90       100
                ....*....|....*....|..
gi 16129184  88 VSNHEEDVVTALKRGADGYLLK 109
Cdd:COG4753  81 GYSDFEYAQEAIKLGADDYLLK 102
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 9-125 1.86e-21

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: 85.47  E-value: 1.86e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLIS-MAPDITVVGEASNGEQGIELAESLDpdlilldlNMPGMNGLETLDKLREKSLSGRIVVfs 87
Cdd:cd17536   1 VLIVDDEPLIREGLKKLIDwEELGFEVVGEAENGEEALELIEEHKpdivitdiRMPGMDGLELIEKIRELYPDIKIII-- 78

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 16129184  88 VSNHEE-DVV-TALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:cd17536  79 LSGYDDfEYAqKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
PRK09483 PRK09483
response regulator; Provisional
 8-187 8.23e-21

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 86.31  E-value: 8.23e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    8 TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:PRK09483   3 NVLLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIMLT 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   88 VsnHEEDVVTA--LKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAasLRANRATTERDVNQLTPRERDILK 165
Cdd:PRK09483  83 V--HTENPLPAkvMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMA--LSQIEPATENPFASLSERELQIML 158

                        170       180
                 ....*....|....*....|..
gi 16129184  166 LIAQGLPNKMIARRLDITESTV 187
Cdd:PRK09483 159 MITKGQKVNEISEQLNLSPKTV 180
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 6-191 1.58e-20

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


Pssm-ID: 440508 [Multi-domain]  Cd Length: 204  Bit Score: 85.39  E-value: 1.58e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   6 PATILLIDDHPMLRTGVKQLISMApDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVV 85
Cdd:COG0745   1 MPRILVVEDDPDIRELLADALERE-GYEVD-TAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIM 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  86 FSVSNHEEDVVTALKRGADGYLLKDMEPEDLL---KALHQAAAGEMVLSEALTpvlaaSLRANRATTERDVNQLTPRERD 162
Cdd:COG0745  79 LTARDDEEDRVRGLEAGADDYLTKPFDPEELLariRALLRRRAAEVLRVGDLL-----DLAAREVTRDGEPVELTPKEFR 153

                       170       180       190
                ....*....|....*....|....*....|....*..
gi 16129184 163 ILKLIA----QGLPNKMIARRL----DITESTVKVHV 191
Cdd:COG0745 154 LLELLMrnpgRVVSREQLLEEVwgydYGDDRTVDVHI 190
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 4-125 1.28e-19

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 81.17  E-value: 1.28e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   4 QEPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRI 83
Cdd:COG4565   1 MKMIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDV 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 16129184  84 VVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:COG4565  81 IVITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLE 122
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 8-123 1.65e-18

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 80.63  E-value: 1.65e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIvVFs 87
Cdd:COG3279   3 KILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPI-IF- 80

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 16129184  88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQA 123
Cdd:COG3279  81 TTAYDEYALEAFEVNAVDYLLKPIDEERLAKALEKA 116
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 9-125 2.01e-18

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: 77.31  E-value: 2.01e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:cd19930   1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTT 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:cd19930  81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-123 6.74e-18

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: 78.67  E-value: 6.74e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   1 MSNQEPATILLIDDHPMLRTGVKQLISMApDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLS 80
Cdd:COG3437   1 MRTGQAPTVLIVDDDPENLELLRQLLRTL-GYDVV-TAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRADPST 78

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
gi 16129184  81 GRIVVFSVS--NHEEDVVTALKRGADGYLLKDMEPEDLLKALHQA 123
Cdd:COG3437  79 RDIPVIFLTalADPEDRERALEAGADDYLTKPFDPEELLARVRNA 123
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 5-125 8.40e-18

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


Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 80.78  E-value: 8.40e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   5 EPATILLIDDHPMLRTGVKQLISMApDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIV 84
Cdd:COG2204   1 SMARILVVDDDPDIRRLLKELLERA-GYEVE-TAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVI 78

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 16129184  85 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:COG2204  79 LLTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALE 119
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 10-109 1.05e-16

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


Pssm-ID: 381085 [Multi-domain]  Cd Length: 99  Bit Score: 72.26  E-value: 1.05e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  10 LLIDDHPMLRTGVKQLISMAPDItvVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVS 89
Cdd:cd00156   1 LIVDDDPAIRELLKSLLEREGYE--VDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAK 78

                        90       100
                ....*....|....*....|
gi 16129184  90 NHEEDVVTALKRGADGYLLK 109
Cdd:cd00156  79 ADEEDAVRALELGADDYLVK 98
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 8-120 1.11e-16

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


Pssm-ID: 381097 [Multi-domain]  Cd Length: 117  Bit Score: 72.70  E-value: 1.11e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQLISMApDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:cd17542   2 KVLIVDDAAFMRMMLKDILTKA-GYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMCS 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 16129184  88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:cd17542  81 AMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAV 113
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 2-127 1.41e-16

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: 72.96  E-value: 1.41e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   2 SNQEPATILLIDDHPMLRTGVKQLISMApDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSG 81
Cdd:COG0784   1 PPLGGKRILVVDDNPDNRELLRRLLERL-GYEVT-TAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRALPRLP 78

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
gi 16129184  82 R--IVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGE 127
Cdd:COG0784  79 DipIIALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLARA 126
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
8-215 1.91e-16

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 74.55  E-value: 1.91e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    8 TILLIDDHPMLRTGVKQLISmAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:PRK09958   2 NAIIIDDHPLAIAAIRNLLI-KNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALT-PVLAASLRANRatterdVNQLTPRERDILKL 166
Cdd:PRK09958  81 AKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSLNrFVGSLTSDQQK------LDSLSKQEISVMRY 154

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 16129184  167 IAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERI 215
Cdd:PRK09958 155 ILDGKDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQRNKI 203
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 6-120 2.57e-15

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: 70.71  E-value: 2.57e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   6 PATILLIDDHPMLRTGVKQLISMApDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGR--I 83
Cdd:COG3706   1 PARILVVDDDPTNRKLLRRLLEAA-GYEVV-EAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRADPRTADipI 78

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 16129184  84 VVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:COG3706  79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELLARV 115
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 9-129 1.10e-14

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: 67.80  E-value: 1.10e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSlSGRIVVFSV 88
Cdd:cd17541   3 VLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAER-PTPVVMVSS 81

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 16129184  89 SNHEEDVVT--ALKRGADGYLLKdmePEDLLKALHQAAAGEMV 129
Cdd:cd17541  82 LTEEGAEITleALELGAVDFIAK---PSGGISLDLEEIAEELI 121
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 156-210 2.53e-14

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 64.86  E-value: 2.53e-14
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 16129184    156 LTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWV 210
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 7-123 1.40e-13

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: 64.53  E-value: 1.40e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   7 ATILLIDDHPMLRTgvkqliSMAP-----DITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSG 81
Cdd:cd17555   1 ATILVIDDDEVVRE------SIAAyledsGFQVL-QAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDT 73

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
gi 16129184  82 RIVVFSVSNHEEDVVTALKRGADGYLLK---DMepEDLLKALHQA 123
Cdd:cd17555  74 PVIVVSGAGVMSDAVEALRLGAWDYLTKpieDL--AVLEHAVRRA 116
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 156-212 1.66e-13

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: 63.06  E-value: 1.66e-13
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 16129184 156 LTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQ 212
Cdd:COG5905  13 LTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALR 69
GerE pfam00196
Bacterial regulatory proteins, luxR family;
156-210 1.82e-13

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 62.60  E-value: 1.82e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 16129184   156 LTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWV 210
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 156-212 2.16e-13

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: 62.55  E-value: 2.16e-13
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 16129184 156 LTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQ 212
Cdd:cd06170   1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 8-122 1.94e-12

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: 61.66  E-value: 1.94e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHP----MLRTGVKQLiSMAPDITVVgeaSNGEQGIELAESLDPDLILL-------DLNMPGMNGLETLDKLRE 76
Cdd:cd17557   1 TILLVEDNPgdaeLIQEAFKEA-GVPNELHVV---RDGEEALDFLRGEGEYADAPrpdlillDLNMPRMDGFEVLREIKA 76

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
gi 16129184  77 KSLSGRI--VVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQ 122
Cdd:cd17557  77 DPDLRRIpvVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRS 124
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 9-120 2.39e-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: 61.40  E-value: 2.39e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIvVFsV 88
Cdd:cd17532   1 ALIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPPLI-VF-V 78

                        90       100       110
                ....*....|....*....|....*....|..
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:cd17532  79 TAYDEYAVEAFELNAVDYLLKPFSEERLAEAL 110
fixJ PRK09390
response regulator FixJ; Provisional
 62-190 3.60e-12

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 62.71  E-value: 3.60e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   62 MPGMNGLETLDKLreKSLSGRIVVFSVSNHEeDV---VTALKRGADGYLLKDMEPEDLLKALHQA--AAGEMVLSEALTP 136
Cdd:PRK09390  57 MPGIDGIELLRRL--KARGSPLPVIVMTGHG-DVplaVEAMKLGAVDFIEKPFEDERLIGAIERAlaQAPEAAKSEAVAA 133

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 16129184  137 VLAASLRanratterdvnQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVH 190
Cdd:PRK09390 134 DIRARIA-----------SLSERERQVMDGLVAGLSNKVIARDLDISPRTVEVY 176
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 10-109 5.05e-12

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: 59.73  E-value: 5.05e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  10 LLIDDHPMLRTGVKQLISMApDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVS 89
Cdd:cd17574   1 LVVEDDEEIAELLSDYLEKE-GYEVD-TAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAK 78

                        90       100
                ....*....|....*....|
gi 16129184  90 NHEEDVVTALKRGADGYLLK 109
Cdd:cd17574  79 DEEEDKVLGLELGADDYITK 98
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
5-190 2.42e-11

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 60.66  E-value: 2.42e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIV 84
Cdd:PRK09935   2 KPASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   85 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVL-SEALTPVLAASLRANRATterdVNQLTPRERDI 163
Cdd:PRK09935  82 FLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFpSETLNYIKSNKCSTNSST----DTVLSNREVTI 157

                        170       180
                 ....*....|....*....|....*..
gi 16129184  164 LKLIAQGLPNKMIARRLDITESTVKVH 190
Cdd:PRK09935 158 LRYLVSGLSNKEIADQLLLSNKTVSAH 184
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 8-122 3.00e-11

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: 58.41  E-value: 3.00e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:cd19925   2 NVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVVT 81

                        90       100       110
                ....*....|....*....|....*....|....*
gi 16129184  88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQ 122
Cdd:cd19925  82 AANDVETVREALRLGVVDYLIKPFTFERLRQRLER 116
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 9-120 1.66e-10

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


Pssm-ID: 381099 [Multi-domain]  Cd Length: 113  Bit Score: 56.32  E-value: 1.66e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGV-KQLISMAPDITVvgeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGR---IV 84
Cdd:cd17546   1 VLVVDDNPVNRKVLkKLLEKLGYEVDV---AENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIRELEGGGRrtpII 77

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 16129184  85 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:cd17546  78 ALTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 9-109 1.71e-10

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: 56.02  E-value: 1.71e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKqlISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSgRIVVFSV 88
Cdd:cd17620   1 ILVIEDEPQIRRFLR--TALEAHGYRVFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLREWSAV-PVIVLSA 77

                        90       100
                ....*....|....*....|.
gi 16129184  89 SNHEEDVVTALKRGADGYLLK 109
Cdd:cd17620  78 RDEESDKIAALDAGADDYLTK 98
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 9-125 1.86e-10

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: 56.27  E-value: 1.86e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMApDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGriVVFSV 88
Cdd:cd19932   3 VLIAEDEALIRMDLREMLEEA-GYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIAP--IVLLT 79

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 16129184  89 SNHEEDVVT-ALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:cd19932  80 AYSQQDLVErAKEAGAMAYLVKPFSESDLIPAIEMAIA 117
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
114-216 2.12e-10

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 57.84  E-value: 2.12e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184 114 EDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKH 193
Cdd:COG2771  86 LLLALLALLAALLARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKR 165

                        90       100
                ....*....|....*....|...
gi 16129184 194 MLKKMKLKSRVEAAVWVHQERIF 216
Cdd:COG2771 166 IYRKLGVSSRAELVALALRLGLI 188
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 9-123 2.16e-10

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: 56.19  E-value: 2.16e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMApDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLR-EKSLSGR-IVVF 86
Cdd:cd19923   3 VLVVDDFSTMRRIIKNLLKEL-GFNNVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIRaDGALSHLpVLMV 81

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 16129184  87 SVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQA 123
Cdd:cd19923  82 TAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKI 118
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 3-137 3.62e-10

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: 56.85  E-value: 3.62e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   3 NQEPATILLIDDHPMLRTGVKQLISMApDITVVGeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGR 82
Cdd:COG4567   1 SAEDRSLLLVDDDEAFARVLARALERR-GFEVTT-AASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDAR 78

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 16129184  83 IVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPV 137
Cdd:COG4567  79 IVVLTGYASIATAVEAIKLGADDYLAKPADADDLLAALERAEGDAPAPPENPMSL 133
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 10-117 9.47e-10

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: 54.15  E-value: 9.47e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  10 LLIDDHPMLRTGVKQliSMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVS 89
Cdd:cd17625   1 LVVEDEKDLSEAITK--HLKKEGYTVDVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGIETPVLLLTAL 78

                        90       100
                ....*....|....*....|....*...
gi 16129184  90 NHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:cd17625  79 DAVEDRVKGLDLGADDYLPKPFSLAELL 106
Spo0F COG5803
Stage 0 sporulation initiation response regulator Spo0F [Cell cycle control, cell division, ...
 8-123 1.04e-09

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


Pssm-ID: 444505 [Multi-domain]  Cd Length: 119  Bit Score: 54.42  E-value: 1.04e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQLISmAPDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:COG5803   4 KILIVDDQAGIRMLLKEVLK-KEGYEVF-QAANGKEALEKVKELKPDLVLLDMKMPGMDGIEILKEIKEIDPDIPVIMMT 81

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 16129184  88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQA 123
Cdd:COG5803  82 AYGELDMVEEAKELGAKGYFTKPFDIDELREAVNKL 117
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 9-122 1.34e-09

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: 54.08  E-value: 1.34e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRtgvKQLISMAPDIT--VVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVF 86
Cdd:cd17593   3 VLICDDSSMAR---KQLARALPADWdvEITFAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVV 79

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 16129184  87 SVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQ 122
Cdd:cd17593  80 SGDVQPEAKERVLELGALAFLKKPFDPEKLAQLLEE 115
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 7-120 1.68e-09

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: 53.84  E-value: 1.68e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   7 ATILLIDDHPMLRtgvkQLISMA-----PDITvvgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSG 81
Cdd:cd17562   1 KKILAVDDSASIR----QMVSFTlrgagYEVV---EAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKLPAYK 73

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 16129184  82 R--IVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:cd17562  74 FtpILMLTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVV 114
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 7-119 2.44e-09

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: 52.99  E-value: 2.44e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   7 ATILLIDDHPMLRTGVK-QLISMAPDITVvgeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVV 85
Cdd:cd17554   1 KKILVVDDEENIRELYKeELEDEGYEVVT---AGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVII 77

                        90       100       110
                ....*....|....*....|....*....|....
gi 16129184  86 FSVSNHEEDVVTALkrGADGYLLKDMePEDLLKA 119
Cdd:cd17554  78 CTAYSEYKSDFSSW--AADAYVVKSS-DLTELKE 108
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 9-116 5.07e-09

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


Pssm-ID: 381098 [Multi-domain]  Cd Length: 122  Bit Score: 52.52  E-value: 5.07e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISmAPDITVVgEASNGEQGIE-LAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:cd17544   3 VLVVDDSATSRNHLRALLR-RHNFQVL-EAANGQEALEvLEQHPDIKLVITDYNMPEMDGFELVREIRKKYSRDQLAIIG 80

                        90       100       110
                ....*....|....*....|....*....|.
gi 16129184  88 VSNHEEDVVTA--LKRGADGYLLKDMEPEDL 116
Cdd:cd17544  81 ISASGDNALSArfIKAGANDFLTKPFLPEEF 111
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 9-187 6.02e-09

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 54.07  E-value: 6.02e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPG---MNGLETLDKLREKSLSGRIVV 85
Cdd:PRK10840   6 VIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMPGdkyGDGITLIKYIKRHFPSLSIIV 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   86 FSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLaASLRANRATTERdvnqLTPRERDILK 165
Cdd:PRK10840  86 LTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVSRLL-EKISAGGYGDKR----LSPKESEVLR 160

                        170       180
                 ....*....|....*....|..
gi 16129184  166 LIAQGLPNKMIARRLDITESTV 187
Cdd:PRK10840 161 LFAEGFLVTEIAKKLNRSIKTI 182
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 9-122 8.17e-09

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


Pssm-ID: 381139 [Multi-domain]  Cd Length: 115  Bit Score: 51.72  E-value: 8.17e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLIS---MAPDItvvgeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVV 85
Cdd:cd17624   1 ILLVEDDALLGDGLKTGLRkagYAVDW-----VRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLI 75

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 16129184  86 FSVSNHEEDVVTALKRGADGYLLKDMEPEDL---LKALHQ 122
Cdd:cd17624  76 LTARDGVDDRVAGLDAGADDYLVKPFALEELlarLRALLR 115
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 9-117 9.29e-09

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: 51.51  E-value: 9.29e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPdiTVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:cd19934   1 LLLVEDDALLAAQLKEQLSDAG--YVVDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLILTA 78

                        90       100
                ....*....|....*....|....*....
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:cd19934  79 RDSWQDKVEGLDAGADDYLTKPFHIEELL 107
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 8-119 9.34e-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: 51.39  E-value: 9.34e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQLISMApDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:cd17548   1 KILIVEDNPLNMKLARDLLESA-GYEVL-EAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKEDPATRDIPVIA 78

                        90       100       110
                ....*....|....*....|....*....|....
gi 16129184  88 VSNH--EEDVVTALKRGADGYLLKDMEPEDLLKA 119
Cdd:cd17548  79 LTAYamKGDREKILEAGCDGYISKPIDTREFLET 112
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
5-103 1.81e-08

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 53.62  E-value: 1.81e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKL-REKSLsgRI 83
Cdd:PRK00742   2 MKIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLNPDVITLDVEMPVMDGLDALEKImRLRPT--PV 79

                         90       100
                 ....*....|....*....|..
gi 16129184   84 VVFSVSNHEEDVVT--ALKRGA 103
Cdd:PRK00742  80 VMVSSLTERGAEITlrALELGA 101
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 6-125 1.86e-08

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: 52.27  E-value: 1.86e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   6 PATILLIDDHPMLRTGVKQLISmAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGrIVV 85
Cdd:COG3707   3 GLRVLVVDDEPLRRADLREGLR-EAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERPAP-VIL 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 16129184  86 FSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:COG3707  81 LTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALELALA 120
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 9-117 2.51e-08

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: 50.46  E-value: 2.51e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQliSMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:cd17627   1 ILVVDDDRAVRESLRR--SLRFEGYEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLTA 78

                        90       100
                ....*....|....*....|....*....
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:cd17627  79 RDSVSDRVAGLDAGADDYLVKPFALEELL 107
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 8-120 4.52e-08

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: 49.75  E-value: 4.52e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQliSMAP-DITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVF 86
Cdd:cd17563   2 SLLLVDDDEVFAERLAR--ALERrGFEVE-TAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVL 78

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 16129184  87 ----SVSNheedVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:cd17563  79 tgyaSIAT----AVEAIKLGADDYLAKPADADEILAAL 112
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 9-116 4.94e-08

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


Pssm-ID: 381104 [Multi-domain]  Cd Length: 121  Bit Score: 49.86  E-value: 4.94e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRI-VVF- 86
Cdd:cd17552   4 ILVIDDEEDIREVVQACLEKLAGWEVL-TASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQANPETQSIpVILl 82

                        90       100       110
                ....*....|....*....|....*....|..
gi 16129184  87 --SVSNHEEDVVTALkrGADGYLLKDMEPEDL 116
Cdd:cd17552  83 taKAQPSDRQRFASL--GVAGVIAKPFDPLTL 112
PRK10336 PRK10336
two-component system response regulator QseB;
9-191 7.75e-08

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 51.05  E-value: 7.75e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISMAPdiTVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:PRK10336   3 ILLIEDDMLIGDGIKTGLSKMG--FSVDWFTQGRQGKEALYSAPYDAVILDLTLPGMDGRDILREWREKGQREPVLILTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   89 SNHEEDVVTALKRGADGYLLKD---MEPEDLLKALHQAAAGEmVLSEALTPVLAASLRANRATTERDVNQLTPRERDILK 165
Cdd:PRK10336  81 RDALAERVEGLRLGADDYLCKPfalIEVAARLEALMRRTNGQ-ASNELRHGNVMLDPGKRIATLAGEPLTLKPKEFALLE 159

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 16129184  166 LIAQG----LPNKMIARRL-----DITESTVKVHV 191
Cdd:PRK10336 160 LLMRNagrvLPRKLIEEKLytwdeEVTSNAVEVHV 194
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 8-125 9.07e-08

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: 48.94  E-value: 9.07e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQLISmAPDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKS-LSGRIVvf 86
Cdd:cd17569   2 TILLVDDEPNILKALKRLLR-REGYEVL-TATSGEEALEILKQEPVDVVISDQRMPGMDGAELLKRVRERYpDTVRIL-- 77

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 16129184  87 sVSNH--EEDVVTALKRGA-DGYLLKDMEPEDLLKALHQAAA 125
Cdd:cd17569  78 -LTGYadLDAAIEAINEGEiYRFLTKPWDDEELKETIRQALE 118
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 9-123 9.17e-08

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: 49.03  E-value: 9.17e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMApDITVVGeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREksLSGRIVVFSV 88
Cdd:cd17549   1 VLLVDDDADVREALQQTLELA-GFRVRA-FADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRE--LDPDLPVILI 76

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 16129184  89 SNHeEDV---VTALKRGADGYLLKDMEPEDLLKALHQA 123
Cdd:cd17549  77 TGH-GDVpmaVEAMRAGAYDFLEKPFDPERLLDVVRRA 113
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 8-109 1.10e-07

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


Pssm-ID: 381093 [Multi-domain]  Cd Length: 104  Bit Score: 48.26  E-value: 1.10e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQLISMApDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRI-VVF 86
Cdd:cd17538   1 KILVVDDEPANRELLEALLSAE-GYEVL-TADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKEDPETRHIpVIM 78

                        90       100
                ....*....|....*....|....
gi 16129184  87 -SVSNHEEDVVTALKRGADGYLLK 109
Cdd:cd17538  79 iTALDDREDRIRGLEAGADDFLSK 102
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 9-109 1.15e-07

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


Pssm-ID: 381162 [Multi-domain]  Cd Length: 100  Bit Score: 48.21  E-value: 1.15e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPdiTVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:cd19935   1 ILVVEDEKKLAEYLKKGLTEEG--YAVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPVLMLTA 78

                        90       100
                ....*....|....*....|.
gi 16129184  89 SNHEEDVVTALKRGADGYLLK 109
Cdd:cd19935  79 RDSVEDRVKGLDLGADDYLVK 99
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 9-117 1.16e-07

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: 48.54  E-value: 1.16e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLisMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVfSV 88
Cdd:cd17619   3 ILIVEDEPVTRATLKSY--FEQEGYDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELREQSEVGIILV-TG 79

                        90       100
                ....*....|....*....|....*....
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:cd17619  80 RDDEVDRIVGLEIGADDYVTKPFNPRELL 108
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 9-117 2.04e-07

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: 48.07  E-value: 2.04e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMapDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSlSGRIVVFSV 88
Cdd:cd17623   1 ILLIDDDRELTELLTEYLEM--EGFNVRAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKTS-QVPVLMLTA 77

                        90       100
                ....*....|....*....|....*....
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:cd17623  78 RGDDIDRILGLELGADDYLPKPFNPRELV 106
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 9-109 2.17e-07

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


Pssm-ID: 381154 [Multi-domain]  Cd Length: 102  Bit Score: 47.37  E-value: 2.17e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQ-LISMapDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRI-VVF 86
Cdd:cd19927   1 ILLVDDDPGIRLAVKDyLEDQ--GFTVI-AASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRKNADFDTIpVIF 77

                        90       100
                ....*....|....*....|....
gi 16129184  87 -SVSNHEEDVVTALKRGADGYLLK 109
Cdd:cd19927  78 lTAKGMTSDRIKGYNAGCDGYLSK 101
PRK10693 PRK10693
two-component system response regulator RssB;
37-109 4.22e-07

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 49.22  E-value: 4.22e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16129184   37 EASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLK 109
Cdd:PRK10693   2 LAANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLK 74
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 8-120 4.91e-07

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: 46.96  E-value: 4.91e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRtgvkQLISMAP-----DITVvgeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGR 82
Cdd:cd17615   1 RVLVVDDEPNIT----ELLSMALryegwDVET---AADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVP 73

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 16129184  83 IVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:cd17615  74 VLFLTAKDSVEDRIAGLTAGGDDYVTKPFSLEEVVARL 111
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 9-109 5.49e-07

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: 46.45  E-value: 5.49e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGR--IVVF 86
Cdd:cd17561   4 VLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLRRMRLEKRpkIIML 83

                        90       100
                ....*....|....*....|...
gi 16129184  87 SVSNHEEDVVTALKRGADGYLLK 109
Cdd:cd17561  84 TAFGQEDITQRAVELGASYYILK 106
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 9-116 5.58e-07

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


Pssm-ID: 381121 [Multi-domain]  Cd Length: 115  Bit Score: 46.85  E-value: 5.58e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQ-LISMAPDITVVGEAS-------NGEQGIELAESLDpdlilldlNMPGMNGLETLDKLR-EKSL 79
Cdd:cd17584   1 VLVVDDDPTCLAILKRmLLRCGYQVTTCTDAEealsmlrENKDEFDLVITDV--------HMPDMDGFEFLELIRlEMDL 72

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 16129184  80 SgrIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDL 116
Cdd:cd17584  73 P--VIMMSADGSTSTVMKGLAHGACDYLLKPVSIEDL 107
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 9-121 6.20e-07

phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is part of the CckA-ChpT-CtrA phosphorelay that is conserved in alphaproteobacteria and is important in orchestrating the cell cycle, polar development, and flagellar biogenesis. CtrA is the master regulator of flagella synthesis genes and also regulates genes involved in the cell cycle, exopolysaccharide synthesis, and cyclic-di-GMP signaling. CtrA is active as a transcription factor when phosphorylated. It is a member of the OmpR family of DNA-binding response regulators, characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381132 [Multi-domain]  Cd Length: 114  Bit Score: 46.63  E-value: 6.20e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKqlISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:cd17616   1 VLLIEDDSATAQSIE--LMLKSEGFNVYTTDLGEEGLDLGKLYDYDIILLDLNLPDMSGYEVLRTLRLAKVKTPILILSG 78

                        90       100       110
                ....*....|....*....|....*....|...
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALH 121
Cdd:cd17616  79 LADIEDKVKGLGFGADDYMTKPFHKDELVARIH 111
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 9-120 7.31e-07

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


Pssm-ID: 381118 [Multi-domain]  Cd Length: 112  Bit Score: 46.30  E-value: 7.31e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMA-PDITVvgeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:cd17580   1 ILVVDDNEDAAEMLALLLELEgAEVTT---AHSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRELPWLANTPAIA 77

                        90       100       110
                ....*....|....*....|....*....|....*
gi 16129184  88 VSNH--EEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:cd17580  78 LTGYgqPEDRERALEAGFDAHLVKPVDPDELIELI 112
PRK11697 PRK11697
two-component system response regulator BtsR;
8-143 1.49e-06

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 47.15  E-value: 1.49e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    8 TILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGriVVFs 87
Cdd:PRK11697   3 KVLIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLELVGMLDPEHMPY--IVF- 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 16129184   88 VSNHEEDVVTALKRGADGYLLKDMEPEDL---LKALHQAAAGemvlSEALTPVLAASLR 143
Cdd:PRK11697  80 VTAFDEYAIKAFEEHAFDYLLKPIDPARLaktLARLRQERSP----QDVLLPEAQPPLK 134
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
8-169 2.73e-06

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 47.15  E-value: 2.73e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    8 TILLIDDHPMLRTGVKQLISMAPDITVVgeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:PRK11361   6 RILIVDDEDNVRRMLSTAFALQGFETHC--ANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMT 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   88 VSNHEEDVVTALKRGADGYLLK--DMEPEDLL--KALH-QAAAGEMVlseALTPVLAASLRANRATTErdvnqlTPRERD 162
Cdd:PRK11361  84 AYAEVETAVEALRCGAFDYVIKpfDLDELNLIvqRALQlQSMKKEIR---HLHQALSTSWQWGHILTN------SPAMMD 154


                 ....*..
gi 16129184  163 ILKLIAQ 169
Cdd:PRK11361 155 ICKDTAK 161
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 7-117 6.55e-06

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


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 43.58  E-value: 6.55e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   7 ATILLIDDHPMLRTGVKQLISMAPDITVVGeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSlSGR---I 83
Cdd:cd17551   1 MRILIVDDNPTNLLLLEALLRSAGYLEVVS-FTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRALP-GLEdvpI 78

                        90       100       110
                ....*....|....*....|....*....|....
gi 16129184  84 VVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:cd17551  79 VMITADTDREVRLRALEAGATDFLTKPFDPVELL 112
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 127-191 7.75e-06

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


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 44.60  E-value: 7.75e-06
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 16129184 127 EMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIA-QGLPNKMIARRLDITESTVKVHV 191
Cdd:COG1595  99 EELPDEAADPEEALEAEELLEALLAALERLPPRQREVLVLRYlEGLSYAEIAEILGISEGTVKSRL 164
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 7-117 9.15e-06

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: 43.39  E-value: 9.15e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   7 ATILLIDDHPMLRTGVKQLISMAPDITVvgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRI--V 84
Cdd:cd17618   1 RTILIVEDEPAIREMIAFNLERAGFDVV--EAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRDEMTRDIpiI 78

                        90       100       110
                ....*....|....*....|....*....|...
gi 16129184  85 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:cd17618  79 MLTARGEEEDKVRGLEAGADDYITKPFSPRELV 111
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
9-117 1.88e-05

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 44.02  E-value: 1.88e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISMAPDITVVgeASNGEQGIELAESLDPDLILLdLNMPGMNGLETLDKLREKSLSgRIVVFSV 88
Cdd:PRK10955   4 ILLVDDDRELTSLLKELLEMEGFNVIV--AHDGEQALDLLDDSIDLLLLD-VMMPKKNGIDTLKELRQTHQT-PVIMLTA 79

                         90       100
                 ....*....|....*....|....*....
gi 16129184   89 SNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:PRK10955  80 RGSELDRVLGLELGADDYLPKPFNDRELV 108
PRK10610 PRK10610
chemotaxis protein CheY;
10-109 1.96e-05

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 42.65  E-value: 1.96e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   10 LLIDDHPMLRTGVKQLISMApDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVS 89
Cdd:PRK10610   9 LVVDDFSTMRRIVRNLLKEL-GFNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRADGAMSALPVLMVT 87

                         90       100
                 ....*....|....*....|..
gi 16129184   90 NH--EEDVVTALKRGADGYLLK 109
Cdd:PRK10610  88 AEakKENIIAAAQAGASGYVVK 109
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
9-148 2.70e-05

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 44.10  E-value: 2.70e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKL-REKSLSGRIVVFS 87
Cdd:PRK12555   3 IGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRImAERPCPILIVTSL 82

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   88 VSNHEEDVVTALKRGA---------DGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRAT 148
Cdd:PRK12555  83 TERNASRVFEAMGAGAldavdtptlGIGAGLEEYAAELLAKIDQIGRLLGRRLAPAAAPAAASAAPFRTT 152
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 62-123 3.53e-05

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


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 41.81  E-value: 3.53e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16129184  62 MPGMNGLETLDKLREKSLSGRIVVfsVSNHeEDV---VTALKRGADGYLLKDMEPEDLLKALHQA 123
Cdd:cd17537  54 MPGMSGLELQDELLARGSNIPIIF--ITGH-GDVpmaVEAMKAGAVDFLEKPFRDQVLLDAIEQA 115
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 9-109 4.26e-05

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


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 41.21  E-value: 4.26e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRtgvKQLISMAPDITV-VGEASNGEQGIELAESLDPDLILLDLN---------MPGMNGLETLDKLREKS 78
Cdd:cd19924   1 ILVVDDSPTAR---KQLRDLLKNLGFeIAEAVDGEEALNKLENLAKEGNDLSKEldliitdieMPKMDGYELTFELRDDP 77

                        90       100       110
                ....*....|....*....|....*....|...
gi 16129184  79 LSGRI--VVFSVSNHEEDVVTALKRGADGYLLK 109
Cdd:cd19924  78 RLANIpvILNSSLSGEFSRARGKKVGADAYLAK 110
PRK11517 PRK11517
DNA-binding response regulator HprR;
9-117 6.61e-05

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 42.58  E-value: 6.61e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISMAPdiTVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSgRIVVFSV 88
Cdd:PRK11517   3 ILLIEDNQRTQEWVTQGLSEAG--YVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQT-PVICLTA 79

                         90       100
                 ....*....|....*....|....*....
gi 16129184   89 SNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:PRK11517  80 RDSVDDRVRGLDSGANDYLVKPFSFSELL 108
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 9-123 6.77e-05

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: 40.94  E-value: 6.77e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPmlrtGVKQLISmapDIT-----VVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSgrI 83
Cdd:cd17550   1 ILIVDDEE----DIRESLS---GILedegyEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPD--L 71

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 16129184  84 VVFSVSNHE--EDVVTALKRGADGYLLKDMEPEDLLKALHQA 123
Cdd:cd17550  72 PVIMISGHGtiETAVKATKLGAYDFIEKPLSLDRLLLTIERA 113
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 35-120 7.73e-05

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: 40.72  E-value: 7.73e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  35 VGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLR--EKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDME 112
Cdd:cd19937  24 VVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRsdPKTSSIPIIMLTAKGEEFDKVLGLELGADDYITKPFS 103

                        90
                ....*....|.
gi 16129184 113 PEDLL---KAL 120
Cdd:cd19937 104 PRELLarvKAV 114
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
92-191 8.65e-05

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 41.61  E-value: 8.65e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  92 EEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAgemVLSEALTPVLAASLRANRATTERDVNQLTPRerdilkLIAQGL 171
Cdd:COG2909  68 SEEDAARLAERTEGWARLALDPEEALALLERLLA---LAEAAGRLLLRALALRALGDREEALAALRRR------LLAEGL 138

                        90       100
                ....*....|....*....|
gi 16129184 172 PNKMIARRLDITESTVKVHV 191
Cdd:COG2909 139 SNKEIAERLFISVNTVKTHL 158
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 153-191 1.42e-04

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


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 38.59  E-value: 1.42e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 16129184   153 VNQLTPRERDILKLIA-QGLPNKMIARRLDITESTVKVHV 191
Cdd:pfam08281   8 LEELPPRQREVFLLRYlEGLSYAEIAELLGISEGTVKSRL 47
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 7-109 1.61e-04

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


Pssm-ID: 381117 [Multi-domain]  Cd Length: 128  Bit Score: 40.08  E-value: 1.61e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   7 ATILLIDDHPMLRTGVKQLISMAPDITVvGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVF 86
Cdd:cd17575   1 IMVLLVDDQAIIGEAVRRALADEEDIDF-HYCSDPTEAIEVASQIKPTVILQDLVMPGVDGLTLVRFFRANPATRDIPII 79

                        90       100
                ....*....|....*....|....*
gi 16129184  87 SVSNHEEDVV--TALKRGADGYLLK 109
Cdd:cd17575  80 VLSTKEEPEVksEAFALGANDYLVK 104
orf27 CHL00148
Ycf27; Reviewed
 9-116 1.98e-04

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 41.24  E-value: 1.98e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISMAPdiTVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSlSGRIVVFSV 88
Cdd:CHL00148   9 ILVVDDEAYIRKILETRLSIIG--YEVITASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIRKES-DVPIIMLTA 85

                         90       100
                 ....*....|....*....|....*...
gi 16129184   89 SNHEEDVVTALKRGADGYLLKDMEPEDL 116
Cdd:CHL00148  86 LGDVSDRITGLELGADDYVVKPFSPKEL 113
PRK15479 PRK15479
transcriptional regulator TctD;
9-126 2.72e-04

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 40.48  E-value: 2.72e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISMAPdiTVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:PRK15479   3 LLLAEDNRELAHWLEKALVQNG--FAVDCVFDGLAADHLLQSEMYALAVLDINMPGMDGLEVLQRLRKRGQTLPVLLLTA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 16129184   89 SNHEEDVVTALKRGADGYLLKDMEPEDL---LKALHQAAAG 126
Cdd:PRK15479  81 RSAVADRVKGLNVGADDYLPKPFELEELdarLRALLRRSAG 121
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 9-109 2.81e-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: 39.03  E-value: 2.81e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHP--------MLR-TGVKQLIsmapditvvgeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSL 79
Cdd:cd19920   1 ILIVDDVPdnlrllseLLRaAGYRVLV-----------ATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKADPA 69

                        90       100       110
                ....*....|....*....|....*....|..
gi 16129184  80 SGRI-VVF-SVSNHEEDVVTALKRGADGYLLK 109
Cdd:cd19920  70 TRHIpVIFlTALTDTEDKVKGFELGAVDYITK 101
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 129-191 2.83e-04

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 40.02  E-value: 2.83e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16129184   129 VLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIA-QGLPNKMIARRLDITESTVKVHV 191
Cdd:TIGR02937  84 LLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYlEGLSYKEIAEILGISVGTVKRRL 147
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
5-124 3.24e-04

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 41.26  E-value: 3.24e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184     5 EPATILLIDDHPMLRTGVK-QLISMAPDitvVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRI 83
Cdd:PRK09959  957 EKLSILIADDHPTNRLLLKrQLNLLGYD---VDEATDGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQNSSLPI 1033

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 16129184    84 VVFSVSNHEEDVVTALKRGADGYLLKDMEPEDL---LKALHQAA 124
Cdd:PRK09959 1034 WGLTANAQANEREKGLSCGMNLCLFKPLTLDVLkthLSQLHQVA 1077
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 9-120 5.24e-04

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: 38.51  E-value: 5.24e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISmAPDITVVGEaSNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSlSGRIVVFSV 88
Cdd:cd17622   3 ILLVEDDPKLARLIADFLE-SHGFNVVVE-HRGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLRPKY-QGPILLLTA 79

                        90       100       110
                ....*....|....*....|....*....|..
gi 16129184  89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:cd17622  80 LDSDIDHILGLELGADDYVVKPVEPAVLLARL 111
PRK10100 PRK10100
transcriptional regulator CsgD;
105-209 5.30e-04

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 39.85  E-value: 5.30e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184  105 GYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVL---AASLRANRAtterDVNQLTPRERDILKLIAQGLPNKMIARRLD 181
Cdd:PRK10100 106 GVFYAMEDQERVVNGLQGVLRGECYFTQKLASYLithSGNYRYNST----ESALLTHREKEILNKLRIGASNNEIARSLF 181

                         90       100
                 ....*....|....*....|....*...
gi 16129184  182 ITESTVKVHVKHMLKKMKLKSRVEAAVW 209
Cdd:PRK10100 182 ISENTVKTHLYNLFKKIAVKNRTQAVSW 209
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 62-117 8.41e-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: 37.74  E-value: 8.41e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 16129184  62 MPGMNGLETLDKLREKSlSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:cd19939  53 LPGMDGLTVCREVREHS-HVPILMLTARTEEMDRVLGLEMGADDYLCKPFSPRELL 107
pleD PRK09581
response regulator PleD; Reviewed
 7-109 9.01e-04

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 39.50  E-value: 9.01e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    7 ATILLIDDHPmlrTGVKQLIS--MAPDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIV 84
Cdd:PRK09581   3 ARILVVDDIP---ANVKLLEAklLAEYYTVL-TASSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKSDPATTHIP 78

                         90       100
                 ....*....|....*....|....*..
gi 16129184   85 VFSVS--NHEEDVVTALKRGADGYLLK 109
Cdd:PRK09581  79 VVMVTalDDPEDRVRGLEAGADDFLTK 105
PRK10766 PRK10766
two-component system response regulator TorR;
8-117 9.26e-04

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 38.87  E-value: 9.26e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    8 TILLIDDHPMLRTGVKQLISMAPdiTVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVfS 87
Cdd:PRK10766   4 HILVVEDEPVTRARLQGYFEQEG--YTVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTRELRSRSTVGIILV-T 80

                         90       100       110
                 ....*....|....*....|....*....|
gi 16129184   88 VSNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:PRK10766  81 GRTDSIDRIVGLEMGADDYVTKPLELRELL 110
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 59-117 1.06e-03

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: 37.45  E-value: 1.06e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 16129184  59 DLNMPGMNGLETLDKLREKSlSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLL 117
Cdd:cd17626  51 DLMLPGIDGIEVCRQIRAES-GVPIVMLTAKSDTVDVVLGLESGADDYVAKPFKPKELV 108
REC_TPR cd17589
phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...
 9-120 1.11e-03

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


Pssm-ID: 381123 [Multi-domain]  Cd Length: 115  Bit Score: 37.63  E-value: 1.11e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVK-QLISMApdITVVGEASNGEQGIELAESLDPDLILLDLNM-PGMNGLETLDKLREKSLSGRIVVF 86
Cdd:cd17589   1 FLIVDDQPTFRSMLKsMLRSLG--VTRIDTASSGEEALRMCENKTYDIVLCDYNLgKGKNGQQLLEELRHKKLISPSTVF 78

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 16129184  87 ---SVSNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:cd17589  79 imvTGESSRAMVLSALELEPDDYLLKPFTVSELRERL 115
dpiA PRK10046
two-component response regulator DpiA; Provisional
 5-120 1.12e-03

two-component response regulator DpiA; Provisional


Pssm-ID: 182208 [Multi-domain]  Cd Length: 225  Bit Score: 38.85  E-value: 1.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIV 84
Cdd:PRK10046   3 APLTLLIVEDETPLAEMHAEYIRHIPGFSQILLAGNLAQARMMIERFKPGLILLDNYLPDGRGINLLHELVQAHYPGDVV 82

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 16129184   85 VFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKAL 120
Cdd:PRK10046  83 FTTAASDMETVSEAVRCGVFDYLIKPIAYERLGQTL 118
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
35-141 1.15e-03

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 39.24  E-value: 1.15e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   35 VGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPE 114
Cdd:PRK10365  32 VALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFD 111

                         90       100
                 ....*....|....*....|....*..
gi 16129184  115 DLLKALHQAAAGEMVlSEALTPVLAAS 141
Cdd:PRK10365 112 NLQATLEKALAHTHS-IDAETPAVTAS 137
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 9-109 1.45e-03

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


Pssm-ID: 381112 [Multi-domain]  Cd Length: 103  Bit Score: 36.87  E-value: 1.45e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88
Cdd:cd17565   1 FYIVDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMISQ 80

                        90       100
                ....*....|....*....|.
gi 16129184  89 SNHEEDVVTALKRGADGYLLK 109
Cdd:cd17565  81 VSDKEMIGKAYQAGIEFFINK 101
Tra8 COG2826
Transposase and inactivated derivatives, IS30 family [Mobilome: prophages, transposons];
155-187 1.99e-03

Transposase and inactivated derivatives, IS30 family [Mobilome: prophages, transposons];


Pssm-ID: 442074 [Multi-domain]  Cd Length: 325  Bit Score: 38.32  E-value: 1.99e-03
                        10        20        30
                ....*....|....*....|....*....|....
gi 16129184 155 QLTPRER-DILKLIAQGLPNKMIARRLDITESTV 187
Cdd:COG2826   6 HLTLEEReEIEALLKAGLSVREIARRLGRSPSTI 39
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
156-191 2.00e-03

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 38.77  E-value: 2.00e-03
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 16129184  156 LTPRERDILKLIAQGLPNKMIARRLDITESTVKVHV 191
Cdd:PRK04841 839 LTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHI 874
PRK14084 PRK14084
DNA-binding response regulator;
9-125 2.02e-03

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 38.19  E-value: 2.02e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIvVFSV 88
Cdd:PRK14084   3 ALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEALLINQYDIIFLDINLMDESGIELAAKIQKMKEPPAI-IFAT 81

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 16129184   89 SnHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAA 125
Cdd:PRK14084  82 A-HDQFAVKAFELNATDYILKPFEQKRIEQAVNKVRA 117
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 8-124 2.81e-03

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: 36.58  E-value: 2.81e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGVKQLISmaPDITVVgEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87
Cdd:cd17596   2 TILVVDDEVRSLEALRRTLE--EDFDVL-TAASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVRERWPEVVRIIIS 78

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 16129184  88 VSNHEEDVVTALKR-GADGYLLKDMEPEDLLKALHQAA 124
Cdd:cd17596  79 GYTDSEDIIAGINEaGIYQYLTKPWHPDQLLLTVRNAA 116
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 7-123 2.95e-03

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: 36.23  E-value: 2.95e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   7 ATILLIDDHPMLRTGVKQLISMApDITVVGEASNGEQGIELAESLDPDLILLDLNMPG-MNGLETLDKLREKSlsgRI-V 84
Cdd:cd17534   1 KKILIVEDEAIIALDLKEILESL-GYEVVGIADSGEEAIELAEENKPDLILMDINLKGdMDGIEAAREIREKF---DIpV 76

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 16129184  85 VFSVSNHEEDVVT-ALKRGADGYLLKDMEPEDLLKALHQA 123
Cdd:cd17534  77 IFLTAYSDEETLErAKETNPYGYLVKPFNERELKAAIELA 116
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 9-109 3.32e-03

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


Pssm-ID: 381163 [Multi-domain]  Cd Length: 99  Bit Score: 35.88  E-value: 3.32e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   9 ILLIDDHPMLRTGVKqlISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKslSGRIVVFSV 88
Cdd:cd19936   1 IALVDDDRNILTSVS--MALEAEGFSVETYTDGASALDGLNARPPDLAILDIKMPRMDGMELLQRLRQK--STLPVIFLT 76

                        90       100
                ....*....|....*....|..
gi 16129184  89 SNHEE-DVVTALKRGADGYLLK 109
Cdd:cd19936  77 SKDDEiDEVFGLRMGADDYITK 98
PRK11173 PRK11173
two-component response regulator; Provisional
 9-116 3.72e-03

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 37.30  E-value: 3.72e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    9 ILLIDDHPMLRTGVKQLISmaPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKS------LSGR 82
Cdd:PRK11173   6 ILIVEDELVTRNTLKSIFE--AEGYDVFEATDGAEMHQILSENDINLVIMDINLPGKNGLLLARELREQAnvalmfLTGR 83

                         90       100       110
                 ....*....|....*....|....*....|....
gi 16129184   83 ivvfsvsNHEEDVVTALKRGADGYLLKDMEPEDL 116
Cdd:PRK11173  84 -------DNEVDKILGLEIGADDYITKPFNPREL 110
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 8-109 3.82e-03

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: 35.89  E-value: 3.82e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184   8 TILLIDDHPMLRTGV-KQLISMAPDITVvgeASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVF 86
Cdd:cd17594   1 HVLVVDDDAAMRHLLiLYLRERGFDVTA---AADGAEEARLMLHRRVDLVLLDLRLGQESGLDLLRTIRARSDVPIIIIS 77

                        90       100
                ....*....|....*....|...
gi 16129184  87 SVSNHEEDVVTALKRGADGYLLK 109
Cdd:cd17594  78 GDRRDEIDRVVGLELGADDYLAK 100
HTH_23 pfam13384
Homeodomain-like domain;
157-187 5.87e-03

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 33.78  E-value: 5.87e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 16129184   157 TPRERD---ILKLIAQGLPNKMIARRLDITESTV 187
Cdd:pfam13384   1 SARERRrarALLLLAEGLSVKEIAELLGVSRRTV 34
ompR PRK09468
osmolarity response regulator; Provisional
 3-121 6.00e-03

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 36.49  E-value: 6.00e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    3 NQEPATILLIDDHPMLRTGVKQLISmaPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGR 82
Cdd:PRK09468   2 MQENYKILVVDDDMRLRALLERYLT--EQGFQVRSAANAEQMDRLLTRESFHLMVLDLMLPGEDGLSICRRLRSQNNPTP 79

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 16129184   83 IVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALH 121
Cdd:PRK09468  80 IIMLTAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIR 118
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 6-123 6.02e-03

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 36.71  E-value: 6.02e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184    6 PATILLIDDHPMLRTGVKQliSMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSlSGRIVV 85
Cdd:PRK10529   1 MTNVLIVEDEQAIRRFLRT--ALEGDGMRVFEAETLQRGLLEAATRKPDLIILDLGLPDGDGIEFIRDLRQWS-AIPVIV 77

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 16129184   86 FSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQA 123
Cdd:PRK10529  78 LSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVA 115
PRK12519 PRK12519
RNA polymerase sigma factor; Provisional
 116-188 6.65e-03

RNA polymerase sigma factor; Provisional


Pssm-ID: 237125 [Multi-domain]  Cd Length: 194  Bit Score: 36.19  E-value: 6.65e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16129184  116 LLKALHQAAAGEmvlSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIA-QGLPNKMIARRLDITESTVK 188
Cdd:PRK12519 105 LLERWQQELLGE---ASEDTPLEQASLAERSQRVQTALAQLPESQRQVLELAYyEGLSQSEIAKRLGIPLGTVK 175
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 128-187 9.41e-03

CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein Csa3, CARF domain is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 442641 [Multi-domain]  Cd Length: 325  Bit Score: 36.37  E-value: 9.41e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129184 128 MVLSEALTPVLAASLRANRATTERDvnqltpRERdILKLIAQGLPNKMIARRLDITESTV 187
Cdd:COG3415   3 LTLTEEERRDLEKLLRKTKDAREAR------RLR-AVLLLAEGLSVREIAERLGVSRSTV 55
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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