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Conserved domains on  [gi|1495850620|gb|RLZ00271|]
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DNA-binding response regulator [Yersinia enterocolitica]

Protein Classification

response regulator transcription factor( domain architecture ID 11487755)

two-component system response regulator transcription factor binds DNA upon phosphorylation and functions as transcriptional regulator similar to Salmonella secretion system transcriptional activator SsrB, which appears to be involved in the modulation of virulence, specifically in the switch from the ability to invade host cells to being equipped for intracellular survival

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK15369 PRK15369
two component system response regulator;
1-210 7.77e-147

two component system response regulator;


:

Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 406.77  E-value: 7.77e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKIL 80
Cdd:PRK15369    2 KNYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNIL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  81 ALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLSQLTQDCETNQTILTPRERQILKLI 160
Cdd:PRK15369   82 VLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNPPLLTPRERQILKLI 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1495850620 161 TEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLGLNE 210
Cdd:PRK15369  162 TEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLIE 211
 
Name Accession Description Interval E-value
PRK15369 PRK15369
two component system response regulator;
1-210 7.77e-147

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 406.77  E-value: 7.77e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKIL 80
Cdd:PRK15369    2 KNYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNIL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  81 ALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLSQLTQDCETNQTILTPRERQILKLI 160
Cdd:PRK15369   82 VLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNPPLLTPRERQILKLI 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1495850620 161 TEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLGLNE 210
Cdd:PRK15369  162 TEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLIE 211
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 6-121 7.66e-45

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: 144.96  E-value: 7.66e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTAR 85
Cdd:cd17535     2 LIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTAH 81

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1495850620  86 HEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAA 121
Cdd:cd17535    82 DDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 3-208 1.55e-36

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: 124.23  E-value: 1.55e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQlrrrwpgmkilal 82
Cdd:COG2197     2 IRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRR------------- 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  83 tarheehyasrtlnngalgyvlkkspqqilmaaiqtvaagkryidpalnsallsqltqdcetnqtILTPRERQILKLITE 162
Cdd:COG2197    69 -----------------------------------------------------------------LLTPREREVLRLLAE 83

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1495850620 163 GSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLGL 208
Cdd:COG2197    84 GLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGL 129
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 6-117 4.79e-26

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: 96.84  E-value: 4.79e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNML--AAYpryqIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:pfam00072   2 LIVDDDPLIRELLRQLLekEGY----VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQ 117
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 149-202 1.91e-18

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 75.64  E-value: 1.91e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 1495850620  149 LTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHW 202
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 4-141 1.45e-16

sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species. [Cellular processes, Sporulation and germination]


Pssm-ID: 131922 [Multi-domain]  Cd Length: 262  Bit Score: 75.60  E-value: 1.45e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRR----RWPgmKI 79
Cdd:TIGR02875   4 RIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLNEielsARP--RV 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1495850620  80 LALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLSQLTQD 141
Cdd:TIGR02875  82 IMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWGTNADILADSPTVPPASHAA 143
 
Name Accession Description Interval E-value
PRK15369 PRK15369
two component system response regulator;
1-210 7.77e-147

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 406.77  E-value: 7.77e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKIL 80
Cdd:PRK15369    2 KNYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNIL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  81 ALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLSQLTQDCETNQTILTPRERQILKLI 160
Cdd:PRK15369   82 VLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNPPLLTPRERQILKLI 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1495850620 161 TEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLGLNE 210
Cdd:PRK15369  162 TEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLIE 211
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 6-121 7.66e-45

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: 144.96  E-value: 7.66e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTAR 85
Cdd:cd17535     2 LIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTAH 81

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1495850620  86 HEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAA 121
Cdd:cd17535    82 DDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK09483 PRK09483
response regulator; Provisional
 6-208 1.69e-44

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 147.56  E-value: 1.69e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTAR 85
Cdd:PRK09483    5 LLVDDHELVRAGIRRILEDIKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIMLTVH 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  86 HEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSAL-LSQLTQDCETNQTILTPRERQILKLITEGS 164
Cdd:PRK09483   85 TENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMaLSQIEPATENPFASLSERELQIMLMITKGQ 164

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 1495850620 165 CNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLGL 208
Cdd:PRK09483  165 KVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGL 208
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 5-191 8.40e-44

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 145.56  E-value: 8.40e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:PRK10651    9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  85 RHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLSQLTQDCETNQ---TILTPRERQILKLIT 161
Cdd:PRK10651   89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRANRATTErdvNQLTPRERDILKLIA 168

                         170       180       190
                  ....*....|....*....|....*....|
gi 1495850620 162 EGSCNRMIASQLSISQKTVETHRLNMMKKL 191
Cdd:PRK10651  169 QGLPNKMIARRLDITESTVKVHVKHMLKKM 198
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 3-208 1.55e-36

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: 124.23  E-value: 1.55e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQlrrrwpgmkilal 82
Cdd:COG2197     2 IRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRR------------- 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  83 tarheehyasrtlnngalgyvlkkspqqilmaaiqtvaagkryidpalnsallsqltqdcetnqtILTPRERQILKLITE 162
Cdd:COG2197    69 -----------------------------------------------------------------LLTPREREVLRLLAE 83

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1495850620 163 GSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLGL 208
Cdd:COG2197    84 GLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGL 129
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
4-200 1.97e-34

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 121.50  E-value: 1.97e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:PRK10403    8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIILT 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLS-QLTQDCETNQTILTPRERQILKLITE 162
Cdd:PRK10403   88 VSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLRErEMFGAEEDPFSVLTERELDVLHELAQ 167

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1495850620 163 GSCNRMIASQLSISQKTVETHRLNMMKKLDVH-KVAELI 200
Cdd:PRK10403  168 GLSNKQIASVLNISEQTVKVHIRNLLRKLNVRsRVAATI 206
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 4-105 6.00e-33

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: 114.10  E-value: 6.00e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:COG4753     1 KVLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILS 80

                          90       100
                  ....*....|....*....|..
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLK 105
Cdd:COG4753    81 GYSDFEYAQEAIKLGADDYLLK 102
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 7-207 1.19e-31

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: 113.66  E-value: 1.19e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   7 IVDDHELIINGIKNMLAAYpRYQIV--GEAENGLDVYNLCRqtePDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:COG4566     4 IVDDDEAVRDSLAFLLESA-GLRVEtfASAEAFLAALDPDR---PGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  85 RHEEHYASRTLNNGALGYVLKKSPQQILMAAIQtvAAGKRYIDPALNSALLSQLTQDCETnqtiLTPRERQILKLITEGS 164
Cdd:COG4566    80 HGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVR--RALARDRARRAERARRAELRARLAS----LTPREREVLDLVVAGL 153

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1495850620 165 CNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLG 207
Cdd:COG4566   154 SNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
PRK10360 PRK10360
transcriptional regulator UhpA;
3-201 1.94e-30

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 110.84  E-value: 1.94e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRrwpGMKILAL 82
Cdd:PRK10360    2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPK---GMATIML 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLSqltqdceTNQTILTPRERQILKLITE 162
Cdd:PRK10360   79 SVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLAS-------GRQDPLTKRERQVAEKLAQ 151

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1495850620 163 GSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIH 201
Cdd:PRK10360  152 GMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELAR 190
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
6-205 1.26e-28

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 106.13  E-value: 1.26e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAyPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTAR 85
Cdd:PRK09958    4 IIIDDHPLAIAAIRNLLIK-NDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAK 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  86 HEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNsALLSQLTQDCETNQTiLTPRERQILKLITEGSC 165
Cdd:PRK09958   83 NDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSLN-RFVGSLTSDQQKLDS-LSKQEISVMRYILDGKD 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1495850620 166 NRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYR 205
Cdd:PRK09958  161 NNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQR 200
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 5-121 2.98e-27

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


Pssm-ID: 381091 [Multi-domain]  Cd Length: 121  Bit Score: 100.10  E-value: 2.98e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNML--AAYPrYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILAL 82
Cdd:cd17536     1 VLIVDDEPLIREGLKKLIdwEELG-FEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIIL 79

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAA 121
Cdd:cd17536    80 SGYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKAKE 118
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 6-117 4.79e-26

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: 96.84  E-value: 4.79e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNML--AAYpryqIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:pfam00072   2 LIVDDDPLIRELLRQLLekEGY----VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQ 117
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 4-192 6.29e-26

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


Pssm-ID: 440508 [Multi-domain]  Cd Length: 204  Bit Score: 99.26  E-value: 6.29e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYpRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:COG0745     3 RILVVEDDPDIRELLADALERE-GYEVD-TAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIMLT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVaAGKRYIDPALNSALLSQLTQDCETNQTI--LTPRERQILKLIT 161
Cdd:COG0745    81 ARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRAL-LRRRAAEVLRVGDLLDLAAREVTRDGEPveLTPKEFRLLELLM 159

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1495850620 162 EGSCNRMIASQL--------SISQKTVETHRLNMMKKLD 192
Cdd:COG0745   160 RNPGRVVSREQLleevwgydYGDDRTVDVHISRLRKKLE 198
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
3-203 2.13e-24

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 95.33  E-value: 2.13e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILAL 82
Cdd:PRK09935    4 ASVIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFL 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLSQLTQDCETNQTILTPRERQILKLITE 162
Cdd:PRK09935   84 SSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETLNYIKSNKCSTNSSTDTVLSNREVTILRYLVS 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 1495850620 163 GSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWS 203
Cdd:PRK09935  164 GLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYA 204
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 6-105 2.03e-23

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: 89.59  E-value: 2.03e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPrYQiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTAR 85
Cdd:cd00156     1 LIVDDDPAIRELLKSLLEREG-YE-VDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAK 78

                          90       100
                  ....*....|....*....|
gi 1495850620  86 HEEHYASRTLNNGALGYVLK 105
Cdd:cd00156    79 ADEEDAVRALELGADDYLVK 98
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-126 1.16e-22

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 88.87  E-value: 1.16e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKIL 80
Cdd:COG4565     2 KMIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDVI 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1495850620  81 ALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYI 126
Cdd:COG4565    82 VITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLL 127
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 4-105 5.27e-22

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 89.49  E-value: 5.27e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:COG3279     3 KILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIFTT 82

                          90       100
                  ....*....|....*....|..
gi 1495850620  84 ArHEEhYASRTLNNGALGYVLK 105
Cdd:COG3279    83 A-YDE-YALEAFEVNAVDYLLK 102
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 1-124 7.42e-22

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: 86.44  E-value: 7.42e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDHELIINGIKNMLAAYpRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRR--WPGMK 78
Cdd:COG0784     4 GGKRILVVDDNPDNRELLRRLLERL-GYEVT-TAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRALprLPDIP 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1495850620  79 ILALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKR 124
Cdd:COG0784    82 IIALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLARAS 127
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 5-121 2.28e-21

phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate/nitrite response regulator protein NarL contains an N-terminal REC domain and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. Escherichia coli NarL activates the expression of the nitrate reductase (narGHJI) and formate dehydrogenase-N (fdnGHI) operons, and represses the transcription of the fumarate reductase (frdABCD) operon in response to a nitrate/nitrite induction signal. Phosphorylation of the NarL REC domain releases the C-terminal HTH output domain that subsequently binds specific DNA promoter sites to repress or activate gene expression. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381158 [Multi-domain]  Cd Length: 117  Bit Score: 85.09  E-value: 2.28e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1495850620  85 RHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAA 121
Cdd:cd19931    81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQAAS 117
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 4-125 9.54e-21

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: 84.96  E-value: 9.54e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYpRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRR--RWPGMKILA 81
Cdd:COG3706     3 RILVVDDDPTNRKLLRRLLEAA-GYEVV-EAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRAdpRTADIPIIF 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1495850620  82 LTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAagkRY 125
Cdd:COG3706    81 LTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVA---RY 121
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 5-121 2.31e-20

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: 82.32  E-value: 2.31e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:cd19930     1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTT 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1495850620  85 RHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAA 121
Cdd:cd19930    81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVHA 117
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-127 2.60e-20

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: 84.83  E-value: 2.60e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDHELIINGIKNMLAAYPrYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPG--MK 78
Cdd:COG3437     5 QAPTVLIVDDDPENLELLRQLLRTLG-YDVV-TAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRADPSTrdIP 82

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1495850620  79 ILALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYID 127
Cdd:COG3437    83 VIFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRLQR 131
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 2-193 5.66e-20

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 84.11  E-value: 5.66e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   2 NTKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPG---MDGLDVIIQLRRRWPGMK 78
Cdd:PRK10840    3 NMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMPGdkyGDGITLIKYIKRHFPSLS 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  79 ILALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIdPALNSALLSQLTQDCETNQTiLTPRERQILK 158
Cdd:PRK10840   83 IIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFT-PESVSRLLEKISAGGYGDKR-LSPKESEVLR 160

                         170       180       190
                  ....*....|....*....|....*....|....*
gi 1495850620 159 LITEGSCNRMIASQLSISQKTVETHRLNMMKKLDV 193
Cdd:PRK10840  161 LFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGV 195
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-124 6.54e-20

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: 86.56  E-value: 6.54e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDHELIINGIKNMLAAYPrYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKIL 80
Cdd:COG2204     1 SMARILVVDDDPDIRRLLKELLERAG-YEVE-TAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVI 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1495850620  81 ALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKR 124
Cdd:COG2204    79 LLTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRR 122
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-148 1.91e-18

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: 79.23  E-value: 1.91e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDHELIINGIKNMLAAYpRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMKIL 80
Cdd:COG3707     2 RGLRVLVVDDEPLRRADLREGLREA-GYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEE-RPAPVI 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1495850620  81 ALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDpALNsALLSQLTQDCETNQTI 148
Cdd:COG3707    80 LLTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALELALARFRELR-ALR-RELAKLREALEERKLI 145
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 149-202 1.91e-18

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 75.64  E-value: 1.91e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 1495850620  149 LTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHW 202
Cdd:smart00421   4 LTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRL 57
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 3-119 1.10e-17

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: 75.39  E-value: 1.10e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIINGIKNMLAAyPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILAL 82
Cdd:cd17542     1 KKVLIVDDAAFMRMMLKDILTK-AGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMC 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:cd17542    80 SAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
GerE pfam00196
Bacterial regulatory proteins, luxR family;
148-202 1.14e-17

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 73.39  E-value: 1.14e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1495850620 148 ILTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHW 202
Cdd:pfam00196   2 SLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRM 56
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 6-105 1.22e-17

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: 74.75  E-value: 1.22e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYpRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTAR 85
Cdd:cd17574     1 LVVEDDEEIAELLSDYLEKE-GYEVD-TAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAK 78

                          90       100
                  ....*....|....*....|
gi 1495850620  86 HEEHYASRTLNNGALGYVLK 105
Cdd:cd17574    79 DEEEDKVLGLELGADDYITK 98
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 148-208 1.26e-17

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: 73.84  E-value: 1.26e-17
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1495850620 148 ILTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLGL 208
Cdd:COG5905    12 LLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGL 72
fixJ PRK09390
response regulator FixJ; Provisional
 48-207 1.91e-17

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 76.96  E-value: 1.91e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  48 EPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVaagkryID 127
Cdd:PRK09390   47 RFGCVVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERA------LA 120

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620 128 PALNSALLSQLTQDCETNQTILTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLG 207
Cdd:PRK09390  121 QAPEAAKSEAVAADIRARIASLSERERQVMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVRMALRAG 200
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 4-121 3.37e-17

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: 73.99  E-value: 3.37e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPrYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGmKILALT 83
Cdd:cd19932     2 RVLIAEDEALIRMDLREMLEEAG-YEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIA-PIVLLT 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAA 121
Cdd:cd19932    80 AYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIEMAIA 117
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 4-141 1.45e-16

sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species. [Cellular processes, Sporulation and germination]


Pssm-ID: 131922 [Multi-domain]  Cd Length: 262  Bit Score: 75.60  E-value: 1.45e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRR----RWPgmKI 79
Cdd:TIGR02875   4 RIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLNEielsARP--RV 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1495850620  80 LALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLSQLTQD 141
Cdd:TIGR02875  82 IMLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQLAWGTNADILADSPTVPPASHAA 143
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 3-121 1.99e-16

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: 72.04  E-value: 1.99e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPgMKIL-- 80
Cdd:cd17541     1 IRVLIVDDSAVMRKLLSRILESDPDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERP-TPVVmv 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1495850620  81 -ALTARHEEHyASRTLNNGALGYVLKksPQQILMAAIQTVAA 121
Cdd:cd17541    80 sSLTEEGAEI-TLEALELGAVDFIAK--PSGGISLDLEEIAE 118
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 149-202 3.74e-16

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: 69.49  E-value: 3.74e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1495850620 149 LTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHW 202
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAY 54
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 6-105 3.68e-15

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


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 67.96  E-value: 3.68e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAA--YpRYQIVGEAENGLDVYnlcRQTEPDIVIIDLGLPGMDGLDVIIQLrRRWPGMKILALT 83
Cdd:cd17620     2 LVIEDEPQIRRFLRTALEAhgY-RVFEAETGQEGLLEA---ATRKPDLIILDLGLPDMDGLEVIRRL-REWSAVPVIVLS 76

                          90       100
                  ....*....|....*....|..
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLK 105
Cdd:cd17620    77 ARDEESDKIAALDAGADDYLTK 98
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 6-105 9.38e-15

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: 67.56  E-value: 9.38e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTAr 85
Cdd:cd17532     2 LIVDDEPLAREELRYLLEEHPDIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVFVTA- 80

                          90       100
                  ....*....|....*....|
gi 1495850620  86 HEEhYASRTLNNGALGYVLK 105
Cdd:cd17532    81 YDE-YAVEAFELNAVDYLLK 99
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 2-105 3.91e-14

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


Pssm-ID: 381109 [Multi-domain]  Cd Length: 108  Bit Score: 65.71  E-value: 3.91e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   2 NTKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLR--RRWPGMKI 79
Cdd:cd17561     1 KIKVLIADDNREFVQLLEEYLNSQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLRrmRLEKRPKI 80

                          90       100
                  ....*....|....*....|....*.
gi 1495850620  80 LALTARHEEHYASRTLNNGALGYVLK 105
Cdd:cd17561    81 IMLTAFGQEDITQRAVELGASYYILK 106
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 5-105 4.12e-14

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: 65.77  E-value: 4.12e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAYpRYQiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDA-GYV-VDVAEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLILTA 78

                          90       100
                  ....*....|....*....|.
gi 1495850620  85 RHEEHYASRTLNNGALGYVLK 105
Cdd:cd19934    79 RDSWQDKVEGLDAGADDYLTK 99
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
149-208 4.81e-14

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 67.47  E-value: 4.81e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620 149 LTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLGL 208
Cdd:COG2771   128 LTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGL 187
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 3-105 6.74e-14

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: 65.30  E-value: 6.74e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIingiKNMLAAYPR---YQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKI 79
Cdd:cd17555     1 ATILVIDDDEVV----RESIAAYLEdsgFQVL-QAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPV 75

                          90       100
                  ....*....|....*....|....*.
gi 1495850620  80 LALTARHEEHYASRTLNNGALGYVLK 105
Cdd:cd17555    76 IVVSGAGVMSDAVEALRLGAWDYLTK 101
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 5-105 6.96e-13

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: 62.50  E-value: 6.96e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAypRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:cd17624     1 ILLVEDDALLGDGLKTGLRK--AGYAVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILTA 78

                          90       100
                  ....*....|....*....|.
gi 1495850620  85 RHEEHYASRTLNNGALGYVLK 105
Cdd:cd17624    79 RDGVDDRVAGLDAGADDYLVK 99
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 5-105 9.87e-13

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: 62.10  E-value: 9.87e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAYpRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLR---RRWPGMKILA 81
Cdd:cd17546     1 VLVVDDNPVNRKVLKKLLEKL-GYEVD-VAENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIReleGGGRRTPIIA 78

                          90       100
                  ....*....|....*....|....
gi 1495850620  82 LTARHEEHYASRTLNNGALGYVLK 105
Cdd:cd17546    79 LTANALEEDREKCLEAGMDDYLSK 102
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 4-99 1.22e-12

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


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 62.07  E-value: 1.22e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYQIVGeAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMK---IL 80
Cdd:cd17551     2 RILIVDDNPTNLLLLEALLRSAGYLEVVS-FTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRAL-PGLEdvpIV 79

                          90
                  ....*....|....*....
gi 1495850620  81 ALTARHEEHYASRTLNNGA 99
Cdd:cd17551    80 MITADTDREVRLRALEAGA 98
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 4-105 1.35e-12

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: 61.65  E-value: 1.35e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPrYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPG-MDGLDVIIQLRRRWPgMKILAL 82
Cdd:cd17534     2 KILIVEDEAIIALDLKEILESLG-YEVVGIADSGEEAIELAEENKPDLILMDINLKGdMDGIEAAREIREKFD-IPVIFL 79

                          90       100
                  ....*....|....*....|...
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLK 105
Cdd:cd17534    80 TAYSDEETLERAKETNPYGYLVK 102
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 6-119 1.63e-12

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: 61.52  E-value: 1.63e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAyPRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRR--RWPGMKILALT 83
Cdd:cd19937     1 LVVDDEEDIVELLKYNLEK-EGYEVV-TAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRSdpKTSSIPIIMLT 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKK-SPQQiLMAAIQTV 119
Cdd:cd19937    79 AKGEEFDKVLGLELGADDYITKPfSPRE-LLARVKAV 114
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 5-105 3.60e-12

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: 60.15  E-value: 3.60e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNML--AAYpryqIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILAL 82
Cdd:cd19935     1 ILVVEDEKKLAEYLKKGLteEGY----AVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPVLML 76

                          90       100
                  ....*....|....*....|...
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLK 105
Cdd:cd19935    77 TARDSVEDRVKGLDLGADDYLVK 99
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 4-105 4.07e-12

phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; Mycobacterium tuberculosis PhoP (MtPhoP) is part of the PhoP/PhoR two-component system that is involved in phosphate control by stimulating expression of genes involved in scavenging, transport and mobilization of phosphate, and repressing the utilization of nitrogen sources. Also included in this subfamily is Mycobacterium tuberculosis transcriptional regulatory protein TcrX, part of the two-component regulatory system TcrY/TcrX that may be involved in virulence. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 60.44  E-value: 4.07e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHEliinGIKNMLAAYPRYQ--IVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILA 81
Cdd:cd17615     1 RVLVVDDEP----NITELLSMALRYEgwDVETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLF 76

                          90       100
                  ....*....|....*....|....*.
gi 1495850620  82 LTARH--EEHYASRTLnnGALGYVLK 105
Cdd:cd17615    77 LTAKDsvEDRIAGLTA--GGDDYVTK 100
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 5-119 9.91e-12

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


Pssm-ID: 381143 [Multi-domain]  Cd Length: 113  Bit Score: 59.60  E-value: 9.91e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAYpRYQIVGeAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPgMKILALTA 84
Cdd:cd18159     1 ILIVEDDETIASLLKKHLEKW-GYEVVL-IEDFEDVLEEFLQFKPDLVLLDINLPYFDGFYWCREIRQISN-VPIIFISS 77

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1495850620  85 RHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:cd18159    78 RDDNMDQVMAINMGGDDYITKPFDLDVLLAKIKAI 112
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
1-107 2.17e-11

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 61.70  E-value: 2.17e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPgMKIL 80
Cdd:PRK00742    2 MKIRVLVVDDSAFMRRLISEILNSDPDIEVVGTAPDGLEAREKIKKLNPDVITLDVEMPVMDGLDALEKIMRLRP-TPVV 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1495850620  81 ---ALTARHeehyASRTLN---NGALGYVLKKS 107
Cdd:PRK00742   81 mvsSLTERG----AEITLRaleLGAVDFVTKPF 109
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
4-102 2.65e-11

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 61.44  E-value: 2.65e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPgMKILALT 83
Cdd:PRK12555    2 RIGIVNDSPLAVEALRRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRIMAERP-CPILIVT 80

                          90
                  ....*....|....*....
gi 1495850620  84 ARHEEHyASRTLNngALGY 102
Cdd:PRK12555   81 SLTERN-ASRVFE--AMGA 96
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
4-105 3.75e-11

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 61.40  E-value: 3.75e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHEliinGIKNMLAAYPRYQ--IVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILA 81
Cdd:PRK11361    6 RILIVDDED----NVRRMLSTAFALQgfETHCANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVIL 81

                          90       100
                  ....*....|....*....|....
gi 1495850620  82 LTARHEEHYASRTLNNGALGYVLK 105
Cdd:PRK11361   82 MTAYAEVETAVEALRCGAFDYVIK 105
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 3-105 3.79e-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: 58.02  E-value: 3.79e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILAL 82
Cdd:cd19925     1 INVLIVEDDPMVAEIHRAYVEQVPGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVV 80

                          90       100
                  ....*....|....*....|...
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLK 105
Cdd:cd19925    81 TAANDVETVREALRLGVVDYLIK 103
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 3-117 1.09e-10

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: 56.62  E-value: 1.09e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIINGIKNMLAAYpRYQIVGEaENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGmKILAL 82
Cdd:cd17622     1 TRILLVEDDPKLARLIADFLESH-GFNVVVE-HRGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLRPKYQG-PILLL 77

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQ 117
Cdd:cd17622    78 TALDSDIDHILGLELGADDYVVKPVEPAVLLARLR 112
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 7-71 1.20e-10

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: 56.13  E-value: 1.20e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1495850620   7 IVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLR 71
Cdd:cd17565     3 IVDDDKNIIKILSDIIEDDDLGEVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLK 67
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 4-124 2.48e-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: 57.23  E-value: 2.48e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAypRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:COG4567     6 SLLLVDDDEAFARVLARALER--RGFEVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDARIVVLT 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1495850620  84 ArheehYASRTL-----NNGALGYVLKKSPQQILMAAIQTVAAGKR 124
Cdd:COG4567    84 G-----YASIATaveaiKLGADDYLAKPADADDLLAALERAEGDAP 124
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 4-119 2.84e-10

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


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 55.46  E-value: 2.84e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHEliinGIKNMLAAYPRYQ--IVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLrRRWPGMKILA 81
Cdd:cd19938     1 RILIVEDEP----KLAQLLIDYLRAAgyAPTLLAHGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREI-RRFSDVPIIM 75

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1495850620  82 LTARHEEHYASRTLNNGALGYVLKK-SPQQIlMAAIQTV 119
Cdd:cd19938    76 VTARVEEIDRLLGLELGADDYICKPySPREV-VARVKAI 113
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 4-117 4.22e-10

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: 54.92  E-value: 4.22e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAyPRYQIVGeAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:cd17554     2 KILVVDDEENIRELYKEELED-EGYEVVT-AGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVIICT 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1495850620  84 ARheEHYASRTLNNGALGYVLKKSPQQILMAAIQ 117
Cdd:cd17554    80 AY--SEYKSDFSSWAADAYVVKSSDLTELKETIK 111
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 4-119 4.38e-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: 55.04  E-value: 4.38e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPrYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRR--RWPGMKILA 81
Cdd:cd19923     2 KVLVVDDFSTMRRIIKNLLKELG-FNNVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIRAdgALSHLPVLM 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1495850620  82 LTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:cd19923    81 VTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKI 118
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 4-105 4.96e-10

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: 54.85  E-value: 4.96e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYpRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLR-----RRWPgmk 78
Cdd:cd17548     1 KILIVEDNPLNMKLARDLLESA-GYEVL-EAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKedpatRDIP--- 75

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1495850620  79 ILALTArheehYA-----SRTLNNGALGYVLK 105
Cdd:cd17548    76 VIALTA-----YAmkgdrEKILEAGCDGYISK 102
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 37-111 5.10e-10

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 56.89  E-value: 5.10e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1495850620  37 GLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTARHEEHYASRTLNNGALGYVLKK-SPQQI 111
Cdd:PRK11083   36 GLPALDKLRQQPPDLVILDVGLPDISGFELCRQLLAFHPALPVIFLTARSDEVDRLVGLEIGADDYVAKPfSPREV 111
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 3-99 8.81e-10

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: 54.45  E-value: 8.81e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELIINGIKNMLAAYpRYQIVgEAENGLDVYNLCRQtEPDI--VIIDLGLPGMDGLDVIIQLRRRWPG--MK 78
Cdd:cd17544     1 IKVLVVDDSATSRNHLRALLRRH-NFQVL-EAANGQEALEVLEQ-HPDIklVITDYNMPEMDGFELVREIRKKYSRdqLA 77

                          90       100
                  ....*....|....*....|.
gi 1495850620  79 ILALTARHEEHYASRTLNNGA 99
Cdd:cd17544    78 IIGISASGDNALSARFIKAGA 98
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 6-93 1.19e-09

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


Pssm-ID: 381118 [Multi-domain]  Cd Length: 112  Bit Score: 53.62  E-value: 1.19e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPryQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPG--MKILALT 83
Cdd:cd17580     2 LVVDDNEDAAEMLALLLELEG--AEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRELPWLanTPAIALT 79

                          90
                  ....*....|..
gi 1495850620  84 --ARHEEHYASR 93
Cdd:cd17580    80 gyGQPEDRERAL 91
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 4-92 1.54e-09

phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; Rhodobacter sphaeroides RegA, also called response regulator PrrA, is the DNA binding regulatory protein of a redox-responsive two-component regulatory system RegB/RegA that is involved in transactivating anaerobic expression of the photosynthetic apparatus. It contains a REC domain and a DNA-binding helix-turn-helix output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381111 [Multi-domain]  Cd Length: 112  Bit Score: 53.60  E-value: 1.54e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAypRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:cd17563     2 SLLLVDDDEVFAERLARALER--RGFEVETAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVLT 79


                  ....*....
gi 1495850620  84 ArheehYAS 92
Cdd:cd17563    80 G-----YAS 83
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 4-105 1.79e-09

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


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 53.71  E-value: 1.79e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHeliiNGIKNML------AAYPRYQivgeAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGM 77
Cdd:cd17553     2 KILIVDDQ----YGIRILLnevfnkEGYQTFQ----AANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENI 73

                          90       100
                  ....*....|....*....|....*...
gi 1495850620  78 KILALTARHEEHYASRTLNNGALGYVLK 105
Cdd:cd17553    74 RVIIMTAYGELDMIQESKELGALTHFAK 101
PRK10610 PRK10610
chemotaxis protein CheY;
2-105 1.95e-09

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 53.82  E-value: 1.95e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   2 NTKLLIVDDHELIINGIKNMLAAYPrYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRR--RWPGMKI 79
Cdd:PRK10610    5 ELKFLVVDDFSTMRRIVRNLLKELG-FNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRAdgAMSALPV 83

                          90       100
                  ....*....|....*....|....*.
gi 1495850620  80 LALTARHEEHYASRTLNNGALGYVLK 105
Cdd:PRK10610   84 LMVTAEAKKENIIAAAQAGASGYVVK 109
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 4-114 2.37e-09

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: 53.18  E-value: 2.37e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPrYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPG-MKILaL 82
Cdd:cd17569     2 TILLVDDEPNILKALKRLLRREG-YEVL-TATSGEEALEILKQEPVDVVISDQRMPGMDGAELLKRVRERYPDtVRIL-L 78

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLKK--SPQQILMA 114
Cdd:cd17569    79 TGYADLDAAIEAINEGEIYRFLTKpwDDEELKET 112
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 4-118 4.04e-09

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: 52.47  E-value: 4.04e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAY---PRyqIVGEAENGLDVYnlcRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMKIL 80
Cdd:cd17626     2 RILVVDDDAALAEMIGIVLRGEgfdPA--FCGDGTQALAAF---REVRPDLVLLDLMLPGIDGIEVCRQIRAE-SGVPIV 75

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1495850620  81 ALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQT 118
Cdd:cd17626    76 MLTAKSDTVDVVLGLESGADDYVAKPFKPKELVARIRA 113
PRK10643 PRK10643
two-component system response regulator PmrA;
4-206 4.43e-09

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 54.27  E-value: 4.43e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIknMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:PRK10643    2 KILIVEDDTLLLQGL--ILALQTEGYACDCASTAREAEALLESGHYSLVVLDLGLPDEDGLHLLRRWRQKKYTLPVLILT 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQtvAAGKRYIDPALNSALLSQLTQDCETNQT-------ILTPRERQI 156
Cdd:PRK10643   80 ARDTLEDRVAGLDVGADDYLVKPFALEELHARIR--ALIRRHQGQGENELQVGNLTLNLGRQQVwldgqelILTPKEFAL 157

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1495850620 157 LK--LITEGS-CNRMIASQ------LSISQKTVETHRLNMMKKLDVHKVAELIHWSYRL 206
Cdd:PRK10643  158 LSrlMLKAGSpVHREILYQdiynwdDEPSSNTLEVHIHNLRDKVGKDRIRTVRGFGYML 216
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 4-119 5.35e-09

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: 52.38  E-value: 5.35e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYqiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWpGMKILALT 83
Cdd:cd19939     1 RILIVEDELELARLTRDYLIKAGLE--VSVFTDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVREHS-HVPILMLT 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:cd19939    78 ARTEEMDRVLGLEMGADDYLCKPFSPRELLARVRAL 113
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 4-119 5.52e-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: 52.30  E-value: 5.52e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAyPRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMK---IL 80
Cdd:cd17562     2 KILAVDDSASIRQMVSFTLRG-AGYEVV-EAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKL-PAYKftpIL 78

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1495850620  81 ALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:cd17562    79 MLTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 6-119 5.88e-09

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: 51.84  E-value: 5.88e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNML--AAYpRYQIVGEAENGLDvynLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:cd17625     1 LVVEDEKDLSEAITKHLkkEGY-TVDVCFDGEEGLE---YALSGIYDLIILDIMLPGMDGLEVLKSLREEGIETPVLLLT 76

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:cd17625    77 ALDAVEDRVKGLDLGADDYLPKPFSLAELLARIRAL 112
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 4-99 7.60e-09

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: 51.34  E-value: 7.60e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYpRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMK---IL 80
Cdd:cd17538     1 KILVVDDEPANRELLEALLSAE-GYEVL-TADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKED-PETRhipVI 77

                          90
                  ....*....|....*....
gi 1495850620  81 ALTARHEEHYASRTLNNGA 99
Cdd:cd17538    78 MITALDDREDRIRGLEAGA 96
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 3-119 8.95e-09

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: 51.48  E-value: 8.95e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHEliinGIKNMLAAYPR---YQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRR--RWPGM 77
Cdd:cd17618     1 RTILIVEDEP----AIREMIAFNLEragFDVV-EAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRdeMTRDI 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1495850620  78 KILALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:cd17618    76 PIIMLTARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAV 117
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 5-77 1.15e-08

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: 51.34  E-value: 1.15e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1495850620   5 LLIVDDHELIINGIKNMLAaYPRYQiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGM 77
Cdd:cd17550     1 ILIVDDEEDIRESLSGILE-DEGYE-VDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDL 71
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 4-119 2.38e-08

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 52.23  E-value: 2.38e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDH----ELIINGIKNmlAAYpryqIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKI 79
Cdd:PRK09836    2 KLLIVEDEkktgEYLTKGLTE--AGF----VVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGWDIVRMLRSANKGMPI 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1495850620  80 LALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:PRK09836   76 LLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTL 115
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 5-117 2.76e-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: 50.07  E-value: 2.76e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAaYPRYqIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLR-FEGY-EVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLTA 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1495850620  85 RHEEHYASRTLNNGALGYVLKKSPQQILMAAIQ 117
Cdd:cd17627    79 RDSVSDRVAGLDAGADDYLVKPFALEELLARVR 111
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 5-117 3.33e-08

phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF appears to play an important role in cell wall integrity in a wide range of gram-positive bacteria, and may also modulate cell membrane integrity. It functions as part of a phosphotransfer system that ultimately controls the levels of competence within the bacteria. YycF belongs to the OmpR family of response regulators, which are characterized by a REC domain and a winged helix-turn-helix effector domain involved in DNA binding. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381130 [Multi-domain]  Cd Length: 115  Bit Score: 50.11  E-value: 3.33e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAyPRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWpGMKILALTA 84
Cdd:cd17614     1 ILVVDDEKPISDILKFNLTK-EGYEVV-TAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVRKTS-NVPIIMLTA 77

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1495850620  85 RHEEHYASRTLNNGALGYVLKKSPQQILMAAIQ 117
Cdd:cd17614    78 KDSEVDKVLGLELGADDYVTKPFSNRELLARVK 110
PRK10816 PRK10816
two-component system response regulator PhoP;
31-138 5.01e-08

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 51.28  E-value: 5.01e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  31 VGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTARHEEHYASRTLNNGALGYVLKKSPQQ 110
Cdd:PRK10816   27 VDAAEDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIE 106

                          90       100
                  ....*....|....*....|....*...
gi 1495850620 111 ILMAAIQtvAAGKRyidpalNSALLSQL 138
Cdd:PRK10816  107 EVMARMQ--ALMRR------NSGLASQV 126
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 4-59 7.18e-08

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


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 47.56  E-value: 7.18e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1495850620    4 KLLIVDDHELIINGIKNMLAAYPrYQiVGEAENGLDVYNLCRQTEPDIVIIDLGLP 59
Cdd:smart00448   2 RILVVDDDPLLRELLKALLEKEG-YE-VDEATDGEEALELLKEEKPDLILLDIMMP 55
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 2-105 9.05e-08

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 50.57  E-value: 9.05e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   2 NTKLLIVDDHELIINGIKNMLAaypryqivGEAENGLDVYNLCR------QTEPDIVIIDLGLPGMDGLDVIIQLrRRWP 75
Cdd:PRK10529    1 MTNVLIVEDEQAIRRFLRTALE--------GDGMRVFEAETLQRglleaaTRKPDLIILDLGLPDGDGIEFIRDL-RQWS 71

                          90       100       110
                  ....*....|....*....|....*....|
gi 1495850620  76 GMKILALTARHEEHYASRTLNNGALGYVLK 105
Cdd:PRK10529   72 AIPVIVLSARSEESDKIAALDAGADDYLSK 101
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 5-88 9.27e-08

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: 48.84  E-value: 9.27e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIingikNMLAAYpryqIVGE------AENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMK 78
Cdd:cd17623     2 LLIDDDRELT-----ELLTEY----LEMEgfnvraAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKT-SQVP 71

                          90
                  ....*....|
gi 1495850620  79 ILALTARHEE 88
Cdd:cd17623    72 VLMLTARGDD 81
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
1-192 1.93e-07

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 49.72  E-value: 1.93e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDhELIINGIKNMLAAYPRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRR--WPGMK 78
Cdd:PRK10161    1 MARRILVVED-EAPIREMVCFVLEQNGFQPV-EAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKREsmTRDIP 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  79 ILALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAagkRYIDP-ALNSALLSQLTQDCETNQTILT------- 150
Cdd:PRK10161   79 VVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVM---RRISPmAVEEVIEMQGLSLDPTSHRVMAgeeplem 155

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1495850620 151 -PRERQILKLIT---------EGSCNRMIASQLSISQKTVETHRLNMMKKLD 192
Cdd:PRK10161  156 gPTEFKLLHFFMthpervysrEQLLNHVWGTNVYVEDRTVDVHIRRLRKALE 207
orf27 CHL00148
Ycf27; Reviewed
 4-160 2.36e-07

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 49.71  E-value: 2.36e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPrYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMKILALT 83
Cdd:CHL00148    8 KILVVDDEAYIRKILETRLSIIG-YEVI-TASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIRKE-SDVPIIMLT 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKK-SPQQiLMAAIQTV---AAGKRYIDPALNSALLS--QLTQDCETNQTI-------LT 150
Cdd:CHL00148   85 ALGDVSDRITGLELGADDYVVKPfSPKE-LEARIRSVlrrTNKKSFSSKIPNSSIIRigFLKIDLNKKQVYknnerirLT 163

                         170
                  ....*....|
gi 1495850620 151 PRERQILKLI 160
Cdd:CHL00148  164 GMEFSLLELL 173
PRK15479 PRK15479
transcriptional regulator TctD;
4-105 2.46e-07

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 49.33  E-value: 2.46e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAypRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:PRK15479    2 RLLLAEDNRELAHWLEKALVQ--NGFAVDCVFDGLAADHLLQSEMYALAVLDINMPGMDGLEVLQRLRKRGQTLPVLLLT 79

                          90       100
                  ....*....|....*....|..
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLK 105
Cdd:PRK15479   80 ARSAVADRVKGLNVGADDYLPK 101
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 6-83 2.99e-07

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


Pssm-ID: 381145 [Multi-domain]  Cd Length: 102  Bit Score: 46.96  E-value: 2.99e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPrYQ--IVGEAENGLDVynLCRQTEPDIVIIDLGLPG-MDGLDVIIQLRRRWPGMKILAL 82
Cdd:cd18161     2 LVVEDDPDVRRLTAEVLEDLG-YTvlEAASGDEALDL--LESGPDIDLLVTDVIMPGgMNGSQLAEEARRRRPDLKVLLT 78


                  .
gi 1495850620  83 T 83
Cdd:cd18161    79 S 79
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 35-105 3.82e-07

phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; DNA-binding transcriptional regulator NtrC is also called nitrogen regulation protein NR(I) or nitrogen regulator I (NRI). It contains an N-terminal receiver (REC) domain, followed by a sigma-54 interaction domain, and a C-terminal helix-turn-helix DNA-binding domain. It is part of the two-component regulatory system NtrB/NtrC, which controls expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. DNA-binding response regulator NtrC is phosphorylated by NtrB; phosphorylation of the N-terminal REC domain activates the central sigma-54 interaction domain and leads to the transcriptional activation from promoters that require sigma(54)-containing RNA polymerase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381146 [Multi-domain]  Cd Length: 116  Bit Score: 47.27  E-value: 3.82e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1495850620  35 ENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTARHEEHYASRTLNNGALGYVLK 105
Cdd:cd19919    31 ENAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIMTAHSDLDSAVSAYQGGAFEYLPK 101
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 36-119 4.79e-07

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 48.53  E-value: 4.79e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  36 NGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLrRRWPGMKILALTARHEEHYASRTLNNGALGYVLKK-SPQQILmA 114
Cdd:PRK10710   42 HGDEVLPYVRQTPPDLILLDLMLPGTDGLTLCREI-RRFSDIPIVMVTAKIEEIDRLLGLEIGADDYICKPySPREVV-A 119


                  ....*
gi 1495850620 115 AIQTV 119
Cdd:PRK10710  120 RVKTI 124
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 62-200 1.01e-06

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 47.43  E-value: 1.01e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  62 DGLDVIIQLRRRWPGMKILALTARHEEHYASRTLNNGAL-GYVLKKSPQQILMAAIQTVAAGKRYIDPALNSalLSQLTQ 140
Cdd:PRK11475   54 EGLSCLTELAIKFPRMRRLVIADDDIEARLIGSLSPSPLdGVLSKASTLEILQQELFLSLNGVRQATDRLNN--QWYINQ 131

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620 141 DCetnqtILTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELI 200
Cdd:PRK11475  132 SR-----MLSPTEREILRFMSRGYSMPQIAEQLERNIKTIRAHKFNVMSKLGVSSDAGLL 186
pleD PRK09581
response regulator PleD; Reviewed
 1-66 1.35e-06

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 47.97  E-value: 1.35e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDhelIINGIK----NMLAAYprYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDV 66
Cdd:PRK09581    1 MTARILVVDD---IPANVKlleaKLLAEY--YTVL-TASSGAEAIAICEREQPDIILLDVMMPGMDGFEV 64
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 4-83 1.39e-06

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


Pssm-ID: 381144 [Multi-domain]  Cd Length: 103  Bit Score: 45.19  E-value: 1.39e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNML--AAYpryqIVGEAENGLDVYNLCRQTEP-DIVIIDLGLPGMDGLDVIIQLRRRWPGMKIL 80
Cdd:cd18160     1 TILLADDEPSVRKFIVTTLkkAGY----AVTEAESGAEALEKLQQGKDiDIVVTDIVMPEMDGIELAREARKIDPDVKIL 76


                  ...
gi 1495850620  81 ALT 83
Cdd:cd18160    77 FIS 79
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 46-114 1.63e-06

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 47.32  E-value: 1.63e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1495850620  46 QTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGmKILALTARHEEHYASRTLNNGALGYVLKKSPQQILMA 114
Cdd:PRK10701   43 REQPDLVLLDIMLPGKDGMTICRDLRPKWQG-PIVLLTSLDSDMNHILALEMGACDYILKTTPPAVLLA 110
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
159-208 2.43e-06

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 46.24  E-value: 2.43e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1495850620 159 LITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHWSYRLGL 208
Cdd:COG2909   133 LLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGL 182
PRK10100 PRK10100
transcriptional regulator CsgD;
109-203 2.44e-06

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 46.40  E-value: 2.44e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620 109 QQILMAAIQTVAAGKRYIDPALNSALL--SQLTQDCETNQTILTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLN 186
Cdd:PRK10100  114 QERVVNGLQGVLRGECYFTQKLASYLIthSGNYRYNSTESALLTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYN 193

                          90
                  ....*....|....*..
gi 1495850620 187 MMKKLDVHKVAELIHWS 203
Cdd:PRK10100  194 LFKKIAVKNRTQAVSWA 210
PRK10336 PRK10336
two-component system response regulator QseB;
4-207 2.82e-06

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 46.43  E-value: 2.82e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYqiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:PRK10336    2 RILLIEDDMLIGDGIKTGLSKMGFS--VDWFTQGRQGKEALYSAPYDAVILDLTLPGMDGRDILREWREKGQREPVLILT 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKksPQQILMAAIQTVAAGKRYIDPALNSALLSQLTQD-------CETNQTILTPRERQI 156
Cdd:PRK10336   80 ARDALAERVEGLRLGADDYLCK--PFALIEVAARLEALMRRTNGQASNELRHGNVMLDpgkriatLAGEPLTLKPKEFAL 157

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620 157 LKLITEGSC----NRMIASQL-----SISQKTVETHRLNMMKKLDVHKVAELIHWSYRLG 207
Cdd:PRK10336  158 LELLMRNAGrvlpRKLIEEKLytwdeEVTSNAVEVHVHHLRRKLGSDFIRTVHGIGYTLG 217
PRK15115 PRK15115
response regulator GlrR; Provisional
 5-175 5.80e-06

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 45.98  E-value: 5.80e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINgIKNMLAAYPRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:PRK15115    8 LLLVDDDPGLLK-LLGMRLTSEGYSVV-TAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIQKVQPGMPVIILTA 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  85 RHEEHYASRTLNNGALGYVLKKSPQQILMAAiqtvaagkryIDPALNsalLSQLTQDCETNQTILTpRERQILKLITEGs 164
Cdd:PRK15115   86 HGSIPDAVAATQQGVFSFLTKPVDRDALYKA----------IDDALE---QSAPATDERWREAIVT-RSPLMLRLLEQA- 150

                         170
                  ....*....|..
gi 1495850620 165 cnRMIA-SQLSI 175
Cdd:PRK15115  151 --RMVAqSDVSV 160
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 34-84 7.14e-06

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


Pssm-ID: 381114 [Multi-domain]  Cd Length: 121  Bit Score: 43.73  E-value: 7.14e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1495850620  34 AENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:cd17572    28 VETGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVITA 78
pleD PRK09581
response regulator PleD; Reviewed
 2-127 9.75e-06

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 45.28  E-value: 9.75e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   2 NTKLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNlcrQTEPDIVIIDLGLPGMDGLDVIIQLRR--RWPGMKI 79
Cdd:PRK09581  155 DGRILLVDDDVSQAERIANILKEEFRVVVVSDPSEALFNAA---ETNYDLVIVSANFENYDPLRLCSQLRSkeRTRYVPI 231

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 1495850620  80 LALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYID 127
Cdd:PRK09581  232 LLLVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQIRRKRYQD 279
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
2-176 9.85e-06

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 45.41  E-value: 9.85e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   2 NTKLLIVDDHELIINGIKNMLAAYPrYQiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILA 81
Cdd:PRK10365    5 NIDILVVDDDISHCTILQALLRGWG-YN-VALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLI 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  82 LTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSALLSQL--------TQDCETNQTILTPRE 153
Cdd:PRK10365   83 MTAYSSVETAVEALKTGALDYLIKPLDFDNLQATLEKALAHTHSIDAETPAVTASQFgmvgkspaMQHLLSEIALVAPSE 162

                         170       180
                  ....*....|....*....|...
gi 1495850620 154 RQILKLITEGSCNRMIASQLSIS 176
Cdd:PRK10365  163 ATVLIHGDSGTGKELVARAIHAS 185
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 6-105 1.05e-05

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: 43.00  E-value: 1.05e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYpRYQ--IVGEAENGLDVYNLCRQtEPDIVIIDLGLPGMDGLDViIQLRRRWPGMKILALT 83
Cdd:cd17584     2 LVVDDDPTCLAILKRMLLRC-GYQvtTCTDAEEALSMLRENKD-EFDLVITDVHMPDMDGFEF-LELIRLEMDLPVIMMS 78

                          90       100
                  ....*....|....*....|..
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLK 105
Cdd:cd17584    79 ADGSTSTVMKGLAHGACDYLLK 100
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 35-105 1.06e-05

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 45.25  E-value: 1.06e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1495850620  35 ENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTARHEEHYASRTLNNGALGYVLK 105
Cdd:PRK10923   34 ENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPK 104
PRK11091 PRK11091
aerobic respiration control sensor protein ArcB; Provisional
 6-84 1.46e-05

aerobic respiration control sensor protein ArcB; Provisional


Pssm-ID: 236842 [Multi-domain]  Cd Length: 779  Bit Score: 44.93  E-value: 1.46e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAypRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMK---ILAL 82
Cdd:PRK11091  529 LLVEDIELNVIVARSVLEK--LGNSVDVAMTGKEALEMFDPDEYDLVLLDIQLPDMTGLDIARELRERYPREDlppLVAL 606


                  ..
gi 1495850620  83 TA 84
Cdd:PRK11091  607 TA 608
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 5-115 1.65e-05

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: 42.37  E-value: 1.65e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIingiKNMLAAYPRYQ--IVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMKILAL 82
Cdd:cd17619     3 ILIVEDEPVT----RATLKSYFEQEgyDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELREQ-SEVGIILV 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLKK-SPQQILMAA 115
Cdd:cd17619    78 TGRDDEVDRIVGLEIGADDYVTKPfNPRELLVRA 111
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 5-105 1.68e-05

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


Pssm-ID: 381136 [Multi-domain]  Cd Length: 99  Bit Score: 42.19  E-value: 1.68e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAyPRYQiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMKILALTA 84
Cdd:cd17621     1 VLVVEDEESFSDPLAYLLRK-EGFE-VTVATDGPAALAEFDRAGADIVLLDLMLPGLSGTEVCRQLRAR-SNVPVIMVTA 77

                          90       100
                  ....*....|....*....|.
gi 1495850620  85 RHEEHYASRTLNNGALGYVLK 105
Cdd:cd17621    78 KDSEIDKVVGLELGADDYVTK 98
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 7-105 1.74e-05

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


Pssm-ID: 381163 [Multi-domain]  Cd Length: 99  Bit Score: 42.05  E-value: 1.74e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   7 IVDDHELIINGIKNMLAAYP-RYQIVGEAENGLDVYNlcrQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMKILALTAR 85
Cdd:cd19936     3 LVDDDRNILTSVSMALEAEGfSVETYTDGASALDGLN---ARPPDLAILDIKMPRMDGMELLQRLRQK-STLPVIFLTSK 78

                          90       100
                  ....*....|....*....|
gi 1495850620  86 HEEHYASRTLNNGALGYVLK 105
Cdd:cd19936    79 DDEIDEVFGLRMGADDYITK 98
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 5-119 1.83e-05

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: 42.40  E-value: 1.83e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAypRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:cd17616     1 VLLIEDDSATAQSIELMLKS--EGFNVYTTDLGEEGLDLGKLYDYDIILLDLNLPDMSGYEVLRTLRLAKVKTPILILSG 78

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1495850620  85 RHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:cd17616    79 LADIEDKVKGLGFGADDYMTKPFHKDELVARIHAI 113
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 5-105 2.08e-05

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: 42.11  E-value: 2.08e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHELIINGIKNMLAAYPrYQiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLR-----RRWPGMKI 79
Cdd:cd19920     1 ILIVDDVPDNLRLLSELLRAAG-YR-VLVATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKadpatRHIPVIFL 78

                          90       100
                  ....*....|....*....|....*.
gi 1495850620  80 LALTARHEEhyaSRTLNNGALGYVLK 105
Cdd:cd19920    79 TALTDTEDK---VKGFELGAVDYITK 101
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 4-67 2.22e-05

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


Pssm-ID: 381086 [Multi-domain]  Cd Length: 123  Bit Score: 42.43  E-value: 2.22e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1495850620   4 KLLIVDDHELIINGIKNMLaaYPRYQI-VGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVI 67
Cdd:cd17530     2 RVLVLDDDPFQCMMAATIL--EDLGPGnVDEADDGREALVILLCNAPDIIICDLKMPDMDGIEFL 64
PRK11697 PRK11697
two-component system response regulator BtsR;
6-105 3.32e-05

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 43.30  E-value: 3.32e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIiqlrrrwpGM-------K 78
Cdd:PRK11697    5 LIVDDEPLAREELRELLQEEGDIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLELV--------GMldpehmpY 76

                          90       100
                  ....*....|....*....|....*..
gi 1495850620  79 ILALTArHEEhYASRTLNNGALGYVLK 105
Cdd:PRK11697   77 IVFVTA-FDE-YAIKAFEEHAFDYLLK 101
PRK10188 PRK10188
transcriptional regulator SdiA;
152-192 3.33e-05

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 43.24  E-value: 3.33e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1495850620 152 RERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLD 192
Cdd:PRK10188  183 REKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFN 223
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 3-117 4.86e-05

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


Pssm-ID: 381124 [Multi-domain]  Cd Length: 117  Bit Score: 41.37  E-value: 4.86e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   3 TKLLIVDDHELiinGIKNMLAAYPRY--QIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKIL 80
Cdd:cd17593     1 MKVLICDDSSM---ARKQLARALPADwdVEITFAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVI 77

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1495850620  81 ALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQ 117
Cdd:cd17593    78 VVSGDVQPEAKERVLELGALAFLKKPFDPEKLAQLLE 114
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 5-85 6.01e-05

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: 40.82  E-value: 6.01e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   5 LLIVDDHEliinGIKNMLAAYPRYQ--IVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRR--RWPGMKIL 80
Cdd:cd19927     1 ILLVDDDP----GIRLAVKDYLEDQgfTVIAASNGLEALDLLNQYIPDLIISDIIMPGVDGYSLLGKLRKnaDFDTIPVI 76


                  ....*
gi 1495850620  81 ALTAR 85
Cdd:cd19927    77 FLTAK 81
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 31-117 6.97e-05

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


Pssm-ID: 381128 [Multi-domain]  Cd Length: 118  Bit Score: 40.77  E-value: 6.97e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  31 VGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGMK---ILALTARHEEHYASRTLNNGALGYVLKKS 107
Cdd:cd17598    25 VQVARNGREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKSD-PDLKdipVILLTTLSDPRDVIRGLECGADNFITKPY 103

                          90
                  ....*....|
gi 1495850620 108 PQQILMAAIQ 117
Cdd:cd17598   104 DEKYLLSRIK 113
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
149-193 9.31e-05

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 42.62  E-value: 9.31e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1495850620 149 LTPRERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDV 193
Cdd:PRK04841  839 LTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGI 883
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 36-105 1.00e-04

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


Pssm-ID: 381155 [Multi-domain]  Cd Length: 100  Bit Score: 40.18  E-value: 1.00e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  36 NGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTARHEEHYASRTLNNGALGYVLK 105
Cdd:cd19928    30 NAATLWRWVEEGEGDLVITDVVMPDENGLDLIPRIKKARPDLPIIVMSAQNTLMTAVKAAERGAFEYLPK 99
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 49-105 1.23e-04

phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and similar domains; This family is composed of response regulators (RRs) that are members of phytochrome-associated, light-sensing two-component signal transduction pathways such as Synechocystis sp. Rcp1, Tolypothrix sp. RcpA, and Agrobacterium tumefaciens bacteriophytochrome response regulator AtBRR. They are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. Also included in this family us Methanosaeta harundinacea methanogenesis regulatory protein FilR2, also a stand-alone RR. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381108 [Multi-domain]  Cd Length: 129  Bit Score: 40.48  E-value: 1.23e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  49 PDIVIIDLGLPGMDGLDVIIQLRRRwPGMK---ILALTARHEEHYASRTLNNGALGYVLK 105
Cdd:cd17557    53 PDLILLDLNMPRMDGFEVLREIKAD-PDLRripVVVLTTSDAEEDIERAYELGANSYIVK 111
REC_ETR-like cd19933
phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and ...
 51-105 2.28e-04

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


Pssm-ID: 381160 [Multi-domain]  Cd Length: 117  Bit Score: 39.30  E-value: 2.28e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1495850620  51 IVIIDLGLPGMDGLDVIIQLRRRWP---GMKILALTARHEEHYASRTLNNGALGYVLK 105
Cdd:cd19933    49 LVLLDLCMPEMDGFEVALRIRKLFGrreRPLIVALTANTDDSTREKCLSLGMNGVITK 106
ompR PRK09468
osmolarity response regulator; Provisional
 2-119 3.12e-04

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 40.34  E-value: 3.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   2 NTKLLIVDDHEliinGIKNMLAAYPRYQ--IVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKI 79
Cdd:PRK09468    5 NYKILVVDDDM----RLRALLERYLTEQgfQVRSAANAEQMDRLLTRESFHLMVLDLMLPGEDGLSICRRLRSQNNPTPI 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1495850620  80 LALTARHEEhyASRT--LNNGALGYVLKKSPQQILMAAIQTV 119
Cdd:PRK09468   81 IMLTAKGEE--VDRIvgLEIGADDYLPKPFNPRELLARIRAV 120
PRK11517 PRK11517
DNA-binding response regulator HprR;
4-160 3.51e-04

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 40.27  E-value: 3.51e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNML--AAYpryqIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLR--RRWPgmkI 79
Cdd:PRK11517    2 KILLIEDNQRTQEWVTQGLseAGY----VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRtaKQTP---V 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620  80 LALTARHEEHYASRTLNNGALGYVLKKSPQQILMAaiqTVAAGKRYIDPALNSALLSQLTQDcETNQTI--------LTP 151
Cdd:PRK11517   75 ICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLA---RVRAQLRQHHALNSTLEISGLRMD-SVSQSVsrdnisitLTR 150


                  ....*....
gi 1495850620 152 RERQILKLI 160
Cdd:PRK11517  151 KEFQLLWLL 159
PRK10693 PRK10693
two-component system response regulator RssB;
33-84 4.18e-04

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 40.36  E-value: 4.18e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1495850620  33 EAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALTA 84
Cdd:PRK10693    2 LAANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISA 53
PRK13557 PRK13557
histidine kinase; Provisional
 2-106 8.25e-04

histidine kinase; Provisional


Pssm-ID: 237425 [Multi-domain]  Cd Length: 540  Bit Score: 39.65  E-value: 8.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   2 NTKLLIVDDHELIINGIKNMLAAYP-RYQIVGEAENGLDVynLCRQTEPDIVIIDLGLPG-MDGLDVIIQLRRRWPGMKI 79
Cdd:PRK13557  415 TETILIVDDRPDVAELARMILEDFGyRTLVASNGREALEI--LDSHPEVDLLFTDLIMPGgMNGVMLAREARRRQPKIKV 492

                          90       100
                  ....*....|....*....|....*..
gi 1495850620  80 LaLTARHEEHYASRTLNNGALGYVLKK 106
Cdd:PRK13557  493 L-LTTGYAEASIERTDAGGSEFDILNK 518
PRK14084 PRK14084
DNA-binding response regulator;
4-148 8.26e-04

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 39.35  E-value: 8.26e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILALT 83
Cdd:PRK14084    2 KALIVDDEPLARNELTYLLNEIGGFEEINEAENVKETLEALLINQYDIIFLDINLMDESGIELAAKIQKMKEPPAIIFAT 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1495850620  84 ArhEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDpalNSALLSQLTQDCETNQTI 148
Cdd:PRK14084   82 A--HDQFAVKAFELNATDYILKPFEQKRIEQAVNKVRATKAKDD---NNASAIANDMSANFDQSL 141
PRK11173 PRK11173
two-component response regulator; Provisional
 1-88 8.96e-04

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 39.23  E-value: 8.96e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNT-KLLIVDDHELIINGIKNMLAA--YpryqIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGM 77
Cdd:PRK11173    1 MQTpHILIVEDELVTRNTLKSIFEAegY----DVFEATDGAEMHQILSENDINLVIMDINLPGKNGLLLARELREQ-ANV 75

                          90
                  ....*....|.
gi 1495850620  78 KILALTARHEE 88
Cdd:PRK11173   76 ALMFLTGRDNE 86
PRK11466 PRK11466
hybrid sensory histidine kinase TorS; Provisional
 4-141 9.03e-04

hybrid sensory histidine kinase TorS; Provisional


Pssm-ID: 236914 [Multi-domain]  Cd Length: 914  Bit Score: 39.89  E-value: 9.03e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHELIINGIKNML-AAYPRYQIVGEAENGLDVynLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILAL 82
Cdd:PRK11466  683 RLLLIEDNPLTQRITAEMLnTSGAQVVAVGNAAQALET--LQNSEPFAAALVDFDLPDYDGITLARQLAQQYPSLVLIGF 760

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1495850620  83 TARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYIDPALNSallSQLTQD 141
Cdd:PRK11466  761 SAHVIDETLRQRTSSLFRGIIPKPVPREVLGQLLAHYLQLQVNNDQPLDV---SQLNED 816
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
5-98 1.35e-03

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 39.33  E-value: 1.35e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620    5 LLIVDDH---ELIINGIKNMLAayprYQiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILA 81
Cdd:PRK09959   961 ILIADDHptnRLLLKRQLNLLG----YD-VDEATDGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQNSSLPIWG 1035

                           90
                   ....*....|....*..
gi 1495850620   82 LTARHEEHYASRTLNNG 98
Cdd:PRK09959  1036 LTANAQANEREKGLSCG 1052
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 7-117 1.65e-03

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: 36.80  E-value: 1.65e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   7 IVDDHELIINGIKNMLAAypryqivgeaeNGLDV---------YNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGM 77
Cdd:cd17537     5 VVDDDEAVRDSLAFLLRS-----------VGLAVktftsasafLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNI 73

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1495850620  78 KILALTARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQ 117
Cdd:cd17537    74 PIIFITGHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIE 113
psREC-like_D2_PleD cd17539
REC-like adaptor domain (D2) of response regulator PleD; PleD contains a REC domain (D1) with ...
 6-127 1.65e-03

REC-like adaptor domain (D2) of response regulator PleD; PleD contains a REC domain (D1) with the phosphorylatable aspartate, a pseudo receiver (psREC)-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 the REC-like adaptor domain D2 of PleD, which is an inactive domain.


Pssm-ID: 381094 [Multi-domain]  Cd Length: 124  Bit Score: 37.29  E-value: 1.65e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPRYQIVGEAENGLDvynLCRQTEPDIVIIDLGLPGMDGLDVIIQLR--RRWPGMKILALT 83
Cdd:cd17539     2 LLVDDRPSSAERIAAMLSSEHEVVVEADPDEALF---RAAEGPFDLVIVSLALEDFDGLRLCSQLRslERTRQLPILAVA 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1495850620  84 ARHEEHYASRTLNNGALGYVLKKSPQQILMAAIQTVAAGKRYID 127
Cdd:cd17539    79 DPGDRGRLIRALEIGVNDYLVRPIDPNELLARVRTQIRRKRYTD 122
Sig70_bacteroi1 TIGR02985
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ...
 145-191 1.80e-03

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


Pssm-ID: 274376 [Multi-domain]  Cd Length: 161  Bit Score: 37.54  E-value: 1.80e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1495850620 145 NQTI--LTPRERQILKL-ITEGSCNRMIASQLSISQKTVETHRLNMMKKL 191
Cdd:TIGR02985 108 EEAIekLPEQCREIFILsRFEGLSNKEIAEELGISVKTVEYHITKALKFL 157
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 4-105 2.01e-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: 36.66  E-value: 2.01e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   4 KLLIVDDHEliinGIKNMLAAYPRYQ--IVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRWPGMKILA 81
Cdd:cd17594     1 HVLVVDDDA----AMRHLLILYLRERgfDVTAAADGAEEARLMLHRRVDLVLLDLRLGQESGLDLLRTIRARSDVPIIII 76

                          90       100
                  ....*....|....*....|....
gi 1495850620  82 LTARHEEHYASRTLNNGALGYVLK 105
Cdd:cd17594    77 SGDRRDEIDRVVGLELGADDYLAK 100
REC_TPR cd17589
phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...
 6-84 2.41e-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: 36.47  E-value: 2.41e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   6 LIVDDHELIINGIKNMLAAYPRYQIVgEAENGLDVYNLCRQTEPDIVIIDLGL-PGMDGLDVIIQLRRRwpgmKILALTA 84
Cdd:cd17589     2 LIVDDQPTFRSMLKSMLRSLGVTRID-TASSGEEALRMCENKTYDIVLCDYNLgKGKNGQQLLEELRHK----KLISPST 76
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 2-71 2.44e-03

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: 36.38  E-value: 2.44e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1495850620   2 NTKLLIVDDHELIINGIK---NMLAAYpryqIVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLR 71
Cdd:cd17552     1 SKRILVIDDEEDIREVVQaclEKLAGW----EVLTASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQ 69
PRK15201 PRK15201
fimbriae biosynthesis transcriptional regulator FimW;
129-202 5.70e-03

fimbriae biosynthesis transcriptional regulator FimW;


Pssm-ID: 185123  Cd Length: 198  Bit Score: 36.56  E-value: 5.70e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1495850620 129 ALNSALLSQLTQDCETNQTILTprERQILKLITEGSCNRMIASQLSISQKTVETHRLNMMKKLDVHKVAELIHW 202
Cdd:PRK15201  116 ALRHSVPSGICHYCTTRHFSVT--ERHLLKLIASGYHLSETAALLSLSEEQTKSLRRSIMRKLHVKTEQQFLKY 187
PRK10766 PRK10766
two-component system response regulator TorR;
1-105 7.16e-03

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 36.17  E-value: 7.16e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1495850620   1 MNTKLLIVDDhELIIngiKNMLAAY---PRYQiVGEAENGLDVYNLCRQTEPDIVIIDLGLPGMDGLDVIIQLRRRwPGM 77
Cdd:PRK10766    1 MSYHILVVED-EPVT---RARLQGYfeqEGYT-VSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTRELRSR-STV 74

                          90       100
                  ....*....|....*....|....*...
gi 1495850620  78 KILALTARHEEHYASRTLNNGALGYVLK 105
Cdd:PRK10766   75 GIILVTGRTDSIDRIVGLEMGADDYVTK 102
 
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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