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Conserved domains on  [gi|1125360769|gb|OLC99479|]
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hypothetical protein AUI88_01610 [Gemmatimonadetes bacterium 13_1_40CM_3_70_8]

Protein Classification

response regulator transcription factor( domain architecture ID 1013612)

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

CATH:  3.40.50.2300
Gene Ontology:  GO:0000156|GO:0000160|GO:0003677|GO:0006355
PubMed:  31100988|10966457
SCOP:  4003632

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK15369 super family cl33127
two component system response regulator;
18-224 6.47e-47

two component system response regulator;


The actual alignment was detected with superfamily member PRK15369:

Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 154.08  E-value: 6.47e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  18 SLQVILADDHPMLRHGVRALLERHG-VAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVL 96
Cdd:PRK15369    3 NYKILLVDDHELIINGIKNMLAPYPrYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILV 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  97 LTALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGFYVGGGVSQAVVEACRAAAAQERGRLTSRERQVVQLVA 176
Cdd:PRK15369   83 LTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNPPLLTPRERQILKLIT 162

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1125360769 177 EGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:PRK15369  163 EGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLI 210
 
Name Accession Description Interval E-value
PRK15369 PRK15369
two component system response regulator;
18-224 6.47e-47

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 154.08  E-value: 6.47e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  18 SLQVILADDHPMLRHGVRALLERHG-VAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVL 96
Cdd:PRK15369    3 NYKILLVDDHELIINGIKNMLAPYPrYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILV 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  97 LTALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGFYVGGGVSQAVVEACRAAAAQERGRLTSRERQVVQLVA 176
Cdd:PRK15369   83 LTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNPPLLTPRERQILKLIT 162

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1125360769 177 EGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:PRK15369  163 EGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLI 210
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 21-136 1.73e-37

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: 126.86  E-value: 1.73e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLER-HGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESePDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 21-224 4.50e-34

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: 118.46  E-value: 4.50e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIaetcpetrvvllta 99
Cdd:COG2197     4 VLIVDDHPLVREGLRALLEAEpDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL-------------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 100 ldqerlvtaavsagvrgfvlktqaeedlvqaieqvsrggfyvgggvsqavveacraaaaqergrLTSRERQVVQLVAEGK 179
Cdd:COG2197    70 ----------------------------------------------------------------LTPREREVLRLLAEGL 85

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 1125360769 180 STKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:COG2197    86 SNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 21-132 2.04e-28

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: 103.39  E-value: 2.04e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVaVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGY-VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAH 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLVQAIE 132
Cdd:pfam00072  80 GDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 163-218 6.38e-18

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 74.49  E-value: 6.38e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1125360769  163 RLTSRERQVVQLVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYA 218
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
tetrathio_RR NF040749
tetrathionate respiration response regulator TtrR;
23-216 1.45e-15

tetrathionate respiration response regulator TtrR;


Pssm-ID: 468713 [Multi-domain]  Cd Length: 191  Bit Score: 72.00  E-value: 1.45e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  23 LADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALDQ 102
Cdd:NF040749    4 LVDDDVAVTDACRFLLESLGYEVQC-WNDSEAFLAQADLYQEGVVLLDMRMPGLDGHQVHQALREQGSTLAVVFLTGHGD 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 103 ERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQvsrggfyvGGGVSQAVVEacRAAAAQERGRLTSRERQVVQLVAEGKSTK 182
Cdd:NF040749   83 VPMAVEQMKLGAVDFLQKPVSAAPLQAALER--------ALAVSAAAFE--RHQIRQRYQSLTPKEREIAGLVVQGLMNR 152

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1125360769 183 QVAALLGITLKTAEFHRARVMKKLDVHDVAGLVR 216
Cdd:NF040749  153 EIAEALNIAVRTVEVHRARVMEKMAAGSLAELVS 186
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 45-137 4.83e-11

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: 60.58  E-value: 4.83e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  45 VVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAET--CPETRVVLLTALDQERLVTAAVSAGVRGFVLKTQ 122
Cdd:TIGR02875  30 VVGVAHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLNEIelSARPRVIMLSAFGQEKITQRAVALGADYYVLKPF 109

                          90
                  ....*....|....*
gi 1125360769 123 AEEDLVQAIEQVSRG 137
Cdd:TIGR02875 110 DLEILAARIRQLAWG 124
 
Name Accession Description Interval E-value
PRK15369 PRK15369
two component system response regulator;
18-224 6.47e-47

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 154.08  E-value: 6.47e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  18 SLQVILADDHPMLRHGVRALLERHG-VAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVL 96
Cdd:PRK15369    3 NYKILLVDDHELIINGIKNMLAPYPrYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRWPAMNILV 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  97 LTALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGFYVGGGVSQAVVEACRAAAAQERGRLTSRERQVVQLVA 176
Cdd:PRK15369   83 LTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNPPLLTPRERQILKLIT 162

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1125360769 177 EGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:PRK15369  163 EGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGLI 210
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 21-136 1.73e-37

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: 126.86  E-value: 1.73e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLER-HGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESePDIEVVGEAADGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLKVIVLTA 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:cd17535    81 HDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 21-206 3.12e-37

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 129.38  E-value: 3.12e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLE-RHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:PRK10651    9 ILLIDDHPMLRTGVKQLISmAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSV 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGFYVGGGVSQAVVEACRA-AAAQERG--RLTSRERQVVQLVA 176
Cdd:PRK10651   89 SNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRAnRATTERDvnQLTPRERDILKLIA 168

                         170       180       190
                  ....*....|....*....|....*....|
gi 1125360769 177 EGKSTKQVAALLGITLKTAEFHRARVMKKL 206
Cdd:PRK10651  169 QGLPNKMIARRLDITESTVKVHVKHMLKKM 198
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 21-224 4.50e-34

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: 118.46  E-value: 4.50e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIaetcpetrvvllta 99
Cdd:COG2197     4 VLIVDDHPLVREGLRALLEAEpDIEVVGEAADGEEALELLEELRPDVVLLDIRMPGMDGLEALRRL-------------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 100 ldqerlvtaavsagvrgfvlktqaeedlvqaieqvsrggfyvgggvsqavveacraaaaqergrLTSRERQVVQLVAEGK 179
Cdd:COG2197    70 ----------------------------------------------------------------LTPREREVLRLLAEGL 85

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 1125360769 180 STKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:COG2197    86 SNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGLL 130
PRK09483 PRK09483
response regulator; Provisional
 21-224 8.70e-34

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 120.60  E-value: 8.70e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLER-HGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:PRK09483    4 VLLVDDHELVRAGIRRILEDiKGIKVVGEACCGEDAVKWCRTNAVDVVLMDMNMPGIGGLEATRKILRYTPDVKIIMLTV 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGFYVGGGVSQavveacRAAAAQERGR-------LTSRERQVV 172
Cdd:PRK09483   84 HTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQ------QMALSQIEPAtenpfasLSERELQIM 157

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1125360769 173 QLVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:PRK09483  158 LMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVELTHLAIRHGLL 209
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 21-222 1.77e-32

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: 116.35  E-value: 1.77e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEASdGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:COG4566     2 VYIVDDDEAVRDSLAFLLESAGLRVETFAS-AEAFLAALDPDRPGCLLLDVRMPGMSGLELQEELAARGSPLPVIFLTGH 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGfyvgggvSQAVVEACRAAAAQER-GRLTSRERQVVQLVAEGK 179
Cdd:COG4566    81 GDVPMAVRAMKAGAVDFLEKPFDDQALLDAVRRALARD-------RARRAERARRAELRARlASLTPREREVLDLVVAGL 153

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1125360769 180 STKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREG 222
Cdd:COG4566   154 SNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 21-134 7.22e-30

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: 107.42  E-value: 7.22e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALL--ERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLT 98
Cdd:cd17536     1 VLIVDDEPLIREGLKKLIdwEELGFEVVGEAENGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIIILS 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1125360769  99 ALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:cd17536    81 GYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALEKA 116
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 20-134 8.90e-29

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: 104.67  E-value: 8.90e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:cd17542     2 KVLIVDDAAFMRMMLKDILTKAGYEVVGEAANGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIDPNAKVIMCSA 81

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:cd17542    82 MGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKV 116
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 21-132 2.04e-28

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: 103.39  E-value: 2.04e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVaVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKEGY-VVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILTAH 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLVQAIE 132
Cdd:pfam00072  80 GDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 19-132 4.22e-28

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: 102.88  E-value: 4.22e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPeTRVVLLT 98
Cdd:cd19932     1 VRVLIAEDEALIRMDLREMLEEAGYEVVGEASDGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENI-APIVLLT 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1125360769  99 ALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIE 132
Cdd:cd19932    80 AYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIE 113
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
18-208 1.06e-27

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 104.55  E-value: 1.06e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  18 SLQVILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVL 96
Cdd:PRK10403    6 PFQVLIVDDHPLMRRGVRQLLELDpGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIII 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  97 LTALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIeqvsRGGFYVGGGVSQAVVEACRAAAAQER-----GRLTSRERQV 171
Cdd:PRK10403   86 LTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAI----RAGAKGSKVFSERVNQYLREREMFGAeedpfSVLTERELDV 161

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1125360769 172 VQLVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDV 208
Cdd:PRK10403  162 LHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNV 198
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 21-120 2.16e-27

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: 100.62  E-value: 2.16e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:COG4753     2 VLIVDDEPLIREGLKRILEWEaGFEVVGEAENGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDPDTKIIILSG 81

                          90       100
                  ....*....|....*....|.
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLK 120
Cdd:COG4753    82 YSDFEYAQEAIKLGADDYLLK 102
PRK10360 PRK10360
transcriptional regulator UhpA;
19-216 1.11e-26

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 101.59  E-value: 1.11e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLE-RHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcpeTRVVLL 97
Cdd:PRK10360    2 ITVALIDDHLIVRSGFAQLLGlEPDLQVVAEFGSGREALAGLPGRGVQVCICDISMPDISGLELLSQLPKG---MATIML 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGFYVGGGVSQAVveacraaAAQERGRLTSRERQVVQLVAE 177
Cdd:PRK10360   79 SVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKL-------ASGRQDPLTKRERQVAEKLAQ 151

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1125360769 178 GKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVR 216
Cdd:PRK10360  152 GMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELAR 190
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 21-134 1.59e-25

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: 96.19  E-value: 1.59e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHG-VAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:cd19930     1 VLIAEDQEMVRGALAALLELEDdLEVVAQASNGQEALRLVLKHSPDVAILDIEMPGRTGLEVAAELREELPDTKVLIVTT 80

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:cd19930    81 FGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTV 115
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 18-134 3.13e-24

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: 92.99  E-value: 3.13e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  18 SLQVILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREI--AETCPETRVV 95
Cdd:COG0784     5 GKRILVVDDNPDNRELLRRLLERLGYEVT-TAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIraLPRLPDIPII 83

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1125360769  96 LLTALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:COG0784    84 ALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRL 122
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 23-120 2.07e-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: 89.98  E-value: 2.07e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  23 LADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALDQ 102
Cdd:cd00156     2 IVDDDPAIRELLKSLLEREGYEVD-TAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTAKAD 80

                          90
                  ....*....|....*...
gi 1125360769 103 ERLVTAAVSAGVRGFVLK 120
Cdd:cd00156    81 EEDAVRALELGADDYLVK 98
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 18-177 5.23e-23

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: 91.94  E-value: 5.23e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  18 SLQVILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLL 97
Cdd:COG0745     1 MPRILVVEDDPDIRELLADALEREGYEVD-TAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARPSDIPIIML 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR---GGFYVGGGVSQavVEACRAAAAQERGRLTSRERQVVQL 174
Cdd:COG0745    80 TARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRrraAEVLRVGDLLD--LAAREVTRDGEPVELTPKEFRLLEL 157


                  ...
gi 1125360769 175 VAE 177
Cdd:COG0745   158 LMR 160
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 21-133 1.05e-22

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: 88.94  E-value: 1.05e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDpDFTVVGEASSGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILTV 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQ 133
Cdd:cd19931    81 SDAEDDVVTALRAGADGYLLKDMEPEDLLEALKQ 114
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 19-134 2.85e-22

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 91.03  E-value: 2.85e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLL 97
Cdd:COG3279     2 MKILIVDDEPLARERLERLLEKYpDLEVVGEASNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIFT 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1125360769  98 TALDQErlvtaAVSA---GVRGFVLKTQAEEDLVQAIEQV 134
Cdd:COG3279    82 TAYDEY-----ALEAfevNAVDYLLKPIDEERLAKALEKA 116
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
22-223 1.71e-21

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 88.03  E-value: 1.71e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  22 ILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALD 101
Cdd:PRK09958    4 IIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAKN 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 102 QERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGFYVGGGVSQAVVEAcrAAAAQERGRLTSRERQVVQLVAEGKST 181
Cdd:PRK09958   84 DHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSLNRFVGSL--TSDQQKLDSLSKQEISVMRYILDGKDN 161

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 1125360769 182 KQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGL 223
Cdd:PRK09958  162 NDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQRNKI 203
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
21-224 2.10e-21

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 88.01  E-value: 2.10e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHG-VAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:PRK09935    6 VIIMDTHPIIRMSIEVLLQKNSeLQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGFTFLKRIKQIQSTVKVLFLSS 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRG-GFYVGGGVSQAVVEACRAAAAQERgRLTSRERQVVQLVAEG 178
Cdd:PRK09935   86 KSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGyTFFPSETLNYIKSNKCSTNSSTDT-VLSNREVTILRYLVSG 164

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1125360769 179 KSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:PRK09935  165 LSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELIDYAKLHELL 210
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 19-136 3.76e-21

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 85.41  E-value: 3.76e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLL 97
Cdd:COG4565     4 IRVLIVEDDPMVAELLRRYLERLpGFEVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARGPDVDVIVI 83

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:COG4565    84 TAARDPETVREALRAGVVDYLIKPFTFERLREALERYLE 122
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 21-134 1.24e-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: 89.25  E-value: 1.24e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:COG2204     5 ILVVDDDPDIRRLLKELLERAGYEVE-TAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALDPDLPVILLTGY 83

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:COG2204    84 GDVETAVEAIKAGAFDYLTKPFDLEELLAAVERA 117
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 18-132 1.26e-20

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: 85.39  E-value: 1.26e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  18 SLQVILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETrVVLL 97
Cdd:COG3707     3 GLRVLVVDDEPLRRADLREGLREAGYEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERPAP-VILL 81

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIE 132
Cdd:COG3707    82 TAYSDPELIERALEAGVSAYLVKPLDPEDLLPALE 116
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 23-103 2.22e-20

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


Pssm-ID: 381116 [Multi-domain]  Cd Length: 99  Bit Score: 82.07  E-value: 2.22e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  23 LADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALDQ 102
Cdd:cd17574     2 VVEDDEEIAELLSDYLEKEGYEVD-TAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREKGSDIPIIMLTAKDE 80


                  .
gi 1125360769 103 E 103
Cdd:cd17574    81 E 81
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 21-138 3.78e-20

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: 83.80  E-value: 3.78e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETR---VVLL 97
Cdd:COG3706     4 ILVVDDDPTNRKLLRRLLEAAGYEVV-EAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRAD-PRTAdipIIFL 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGG 138
Cdd:COG3706    82 TALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVARYG 122
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 18-217 2.17e-19

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 82.96  E-value: 2.17e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  18 SLQVILADDHPMLRHGVRALLER-HGVAVVAEASDGRTAAAAAREHHPDVAILDIMMP---LLNGIDAAREIAETCPETR 93
Cdd:PRK10840    3 NMNVIIADDHPIVLFGIRKSLEQiEWVNVVGEFEDSTALINNLPKLDAHVLITDLSMPgdkYGDGITLIKYIKRHFPSLS 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  94 VVLLTALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGFYVGGGVSQaVVEACRAAAAQERgRLTSRERQVVQ 173
Cdd:PRK10840   83 IIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPESVSR-LLEKISAGGYGDK-RLSPKESEVLR 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 1125360769 174 LVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRY 217
Cdd:PRK10840  161 LFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNY 204
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 21-136 2.21e-18

Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains [Signal transduction mechanisms];


Pssm-ID: 442663 [Multi-domain]  Cd Length: 224  Bit Score: 80.21  E-value: 2.21e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREI--AETCPETRVVLLT 98
Cdd:COG3437     9 VLIVDDDPENLELLRQLLRTLGYDVV-TAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLraDPSTRDIPVIFLT 87

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1125360769  99 ALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:COG3437    88 ALADPEDRERALEAGADDYLTKPFDPEELLARVRNALE 125
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 163-218 6.38e-18

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 74.49  E-value: 6.38e-18
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1125360769  163 RLTSRERQVVQLVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYA 218
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
fixJ PRK09390
response regulator FixJ; Provisional
 25-224 2.32e-17

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 76.96  E-value: 2.32e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  25 DDHPMLRHGVRALLERHGVAVVAEASdgrtaAAAAREHHPDVA----ILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:PRK09390   10 DDDEAMRDSLAFLLDSAGFEVRLFES-----AQAFLDALPGLRfgcvVTDVRMPGIDGIELLRRLKARGSPLPVIVMTGH 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGGfyvgggVSQAVVEACRAAAAQERGRLTSRERQVVQLVAEGKS 180
Cdd:PRK09390   85 GDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQA------PEAAKSEAVAADIRARIASLSERERQVMDGLVAGLS 158

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 1125360769 181 TKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:PRK09390  159 NKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVRMALRAGRG 202
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 164-220 2.70e-17

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: 72.95  E-value: 2.70e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1125360769 164 LTSRERQVVQLVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIR 220
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 154-226 4.87e-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: 72.69  E-value: 4.87e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1125360769 154 RAAAAQERGRLTSRERQVVQLVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLIAP 226
Cdd:COG5905     3 PSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGLLSL 75
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 21-136 1.30e-16

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


Pssm-ID: 381087 [Multi-domain]  Cd Length: 118  Bit Score: 72.96  E-value: 1.30e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHG-VAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:cd17532     1 ALIVDDEPLAREELRYLLEEHPdIEIVGEAENGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVFVTA 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1125360769 100 LDQerlvtAAVSA---GVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:cd17532    81 YDE-----YAVEAfelNAVDYLLKPFSEERLAEALAKLRK 115
GerE pfam00196
Bacterial regulatory proteins, luxR family;
164-218 3.89e-16

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 69.92  E-value: 3.89e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1125360769 164 LTSRERQVVQLVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYA 218
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
Spo0A COG5801
Stage 0 sporulation initiation regulator Spo0A (response regulator, REC-HTH domains) [Cell ...
 21-137 4.88e-16

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


Pssm-ID: 444503 [Multi-domain]  Cd Length: 264  Bit Score: 74.45  E-value: 4.88e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHG-VAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETR--VVLL 97
Cdd:COG5801     7 VLIADDNREFCELLEEYLSSQPdMEVVGVAYNGLEALELIEEKKPDVVILDIIMPHLDGLGVLEKLREMNLEKRpkVIML 86

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRG 137
Cdd:COG5801    87 TAFGQEDITQRAVELGADYYILKPFDLDVLAERIRQLAGG 126
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 21-131 7.71e-16

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: 70.58  E-value: 7.71e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAE---TCPETRVVLL 97
Cdd:cd17546     1 VLVVDDNPVNRKVLKKLLEKLGYEVDV-AENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIRElegGGRRTPIIAL 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAI 131
Cdd:cd17546    80 TANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 21-104 8.41e-16

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: 70.22  E-value: 8.41e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETR---VVLL 97
Cdd:cd17538     2 ILVVDDEPANRELLEALLSAEGYEVL-TADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKED-PETRhipVIMI 79


                  ....*..
gi 1125360769  98 TALDQER 104
Cdd:cd17538    80 TALDDRE 86
tetrathio_RR NF040749
tetrathionate respiration response regulator TtrR;
23-216 1.45e-15

tetrathionate respiration response regulator TtrR;


Pssm-ID: 468713 [Multi-domain]  Cd Length: 191  Bit Score: 72.00  E-value: 1.45e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  23 LADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALDQ 102
Cdd:NF040749    4 LVDDDVAVTDACRFLLESLGYEVQC-WNDSEAFLAQADLYQEGVVLLDMRMPGLDGHQVHQALREQGSTLAVVFLTGHGD 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 103 ERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQvsrggfyvGGGVSQAVVEacRAAAAQERGRLTSRERQVVQLVAEGKSTK 182
Cdd:NF040749   83 VPMAVEQMKLGAVDFLQKPVSAAPLQAALER--------ALAVSAAAFE--RHQIRQRYQSLTPKEREIAGLVVQGLMNR 152

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1125360769 183 QVAALLGITLKTAEFHRARVMKKLDVHDVAGLVR 216
Cdd:NF040749  153 EIAEALNIAVRTVEVHRARVMEKMAAGSLAELVS 186
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 21-133 1.73e-15

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: 69.88  E-value: 1.73e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETR---VVLL 97
Cdd:cd17548     2 ILIVEDNPLNMKLARDLLESAGYEVL-EAADGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKED-PATRdipVIAL 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1125360769  98 TAL----DQERlvtaAVSAGVRGFVLKTQAEEDLVQAIEQ 133
Cdd:cd17548    80 TAYamkgDREK----ILEAGCDGYISKPIDTREFLETVAK 115
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 21-120 1.83e-15

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: 70.11  E-value: 1.83e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPeTRVVLLTA 99
Cdd:cd17541     3 VLIVDDSAVMRKLLSRILESDpDIEVVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERP-TPVVMVSS 81

                          90       100
                  ....*....|....*....|...
gi 1125360769 100 LDQERLVTA--AVSAGVRGFVLK 120
Cdd:cd17541    82 LTEEGAEITleALELGAVDFIAK 104
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 20-120 3.03e-15

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: 69.39  E-value: 3.03e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETR---VVL 96
Cdd:cd17551     2 RILIVDDNPTNLLLLEALLRSAGYLEVVSFTDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRAL-PGLEdvpIVM 80

                          90       100
                  ....*....|....*....|....
gi 1125360769  97 LTALDQERLVTAAVSAGVRGFVLK 120
Cdd:cd17551    81 ITADTDREVRLRALEAGATDFLTK 104
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 21-132 3.14e-14

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


Pssm-ID: 381089 [Multi-domain]  Cd Length: 117  Bit Score: 66.66  E-value: 3.14e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMP-LLNGIDAAREIAETCPeTRVVLLTA 99
Cdd:cd17534     3 ILIVEDEAIIALDLKEILESLGYEVVGIADSGEEAIELAEENKPDLILMDINLKgDMDGIEAAREIREKFD-IPVIFLTA 81

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIE 132
Cdd:cd17534    82 YSDEETLERAKETNPYGYLVKPFNERELKAAIE 114
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 19-133 3.84e-14

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: 66.50  E-value: 3.84e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLL 97
Cdd:cd19925     1 INVLIVEDDPMVAEIHRAYVEQVpGFTVIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVV 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQ 133
Cdd:cd19925    81 TAANDVETVREALRLGVVDYLIKPFTFERLRQRLER 116
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
19-181 4.34e-14

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 70.18  E-value: 4.34e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERH-GVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPeTRVVLL 97
Cdd:PRK00742    4 IRVLVVDDSAFMRRLISEILNSDpDIEVVGTAPDGLEAREKIKKLNPDVITLDVEMPVMDGLDALEKIMRLRP-TPVVMV 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  98 TALDQE--RLVTAAVSAGVRGFVLK---------TQAEEDLVQAIEQVSRGGFYVGGGVSQAVVEACRAAAAqergRLTS 166
Cdd:PRK00742   83 SSLTERgaEITLRALELGAVDFVTKpflgislgmDEYKEELAEKVRAAARARVRALPPRAAAAARAAAAAPA----ALAA 158

                         170
                  ....*....|....*
gi 1125360769 167 RERQVVQLVAEGKST 181
Cdd:PRK00742  159 APLLSSKLVAIGTST 173
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
21-120 4.22e-13

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 67.57  E-value: 4.22e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:PRK11361    7 ILIVDDEDNVRRMLSTAFALQGFETHC-ANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHETRTPVILMTAY 85

                          90       100
                  ....*....|....*....|
gi 1125360769 101 DQERLVTAAVSAGVRGFVLK 120
Cdd:PRK11361   86 AEVETAVEALRCGAFDYVIK 105
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 21-134 1.22e-12

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: 62.34  E-value: 1.22e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETR---VVLL 97
Cdd:cd17598     1 ILIVEDSPTQAEQLKHILEEQGYKVQV-ARNGREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKSD-PDLKdipVILL 78

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:cd17598    79 TTLSDPRDVIRGLECGADNFITKPYDEKYLLSRIKYI 115
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 21-128 1.30e-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: 62.37  E-value: 1.30e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd17615     2 VLVVDDEPNITELLSMALRYEGWDVET-AADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLFLTAK 80

                          90       100
                  ....*....|....*....|....*...
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLV 128
Cdd:cd17615    81 DSVEDRIAGLTAGGDDYVTKPFSLEEVV 108
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 21-74 1.97e-12

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: 59.89  E-value: 1.97e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 1125360769   21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMP 74
Cdd:smart00448   3 ILVVDDDPLLRELLKALLEKEGYEVD-EATDGEEALELLKEEKPDLILLDIMMP 55
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 20-136 7.99e-12

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


Pssm-ID: 381108 [Multi-domain]  Cd Length: 129  Bit Score: 60.51  E-value: 7.99e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAV-VAEASDGRTA-------AAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPE 91
Cdd:cd17557     1 TILLVEDNPGDAELIQEAFKEAGVPNeLHVVRDGEEAldflrgeGEYADAPRPDLILLDLNMPRMDGFEVLREIKAD-PD 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 1125360769  92 TR---VVLLTALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:cd17557    80 LRripVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSLGE 127
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 21-99 1.11e-11

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and similar domains; Thermotoga maritima contains a two-component signal transduction system (TCS) composed of the ThkA sensory histidine kinase (HK) and its cognate response regulator (RR) TrrA; the specific function of the system is unknown. TCSs couple environmental stimuli to adaptive responses. TrrA is a stand-alone RR containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381106 [Multi-domain]  Cd Length: 113  Bit Score: 59.54  E-value: 1.11e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:cd17554     3 ILVVDDEENIRELYKEELEDEGYEVVT-AGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKKPDLPVIICTA 80
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 23-103 1.32e-11

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


Pssm-ID: 381140 [Multi-domain]  Cd Length: 115  Bit Score: 59.54  E-value: 1.32e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  23 LADDHPMLRHGVRALLERHGVaVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALDQ 102
Cdd:cd17625     2 VVEDEKDLSEAITKHLKKEGY-TVDVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGIETPVLLLTALDA 80


                  .
gi 1125360769 103 E 103
Cdd:cd17625    81 V 81
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 21-113 3.10e-11

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


Pssm-ID: 381118 [Multi-domain]  Cd Length: 112  Bit Score: 58.24  E-value: 3.10e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGvAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCP--ETRVVLLT 98
Cdd:cd17580     1 ILVVDDNEDAAEMLALLLELEG-AEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRELPWlaNTPAIALT 79

                          90
                  ....*....|....*
gi 1125360769  99 ALDQERLVTAAVSAG 113
Cdd:cd17580    80 GYGQPEDRERALEAG 94
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
37-224 3.65e-11

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 60.15  E-value: 3.65e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  37 LLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALDQERLVTAAVSAGVRG 116
Cdd:COG2771     1 LLLLALALLLLALLLLLLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 117 FVLKTQAEEDLVQAIEQVSRGGFYVGGGVSQAVVEACRAAAAQERGRLTSRERQVVQLVAEGKSTKQVAALLGITLKTAE 196
Cdd:COG2771    81 LLALLLLLALLALLAALLARLAALLLALALAALLLAALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVR 160

                         170       180
                  ....*....|....*....|....*...
gi 1125360769 197 FHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:COG2771   161 THLKRIYRKLGVSSRAELVALALRLGLI 188
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 45-137 4.83e-11

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: 60.58  E-value: 4.83e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  45 VVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAET--CPETRVVLLTALDQERLVTAAVSAGVRGFVLKTQ 122
Cdd:TIGR02875  30 VVGVAHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLNEIelSARPRVIMLSAFGQEKITQRAVALGADYYVLKPF 109

                          90
                  ....*....|....*
gi 1125360769 123 AEEDLVQAIEQVSRG 137
Cdd:TIGR02875 110 DLEILAARIRQLAWG 124
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 21-102 4.91e-11

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: 57.88  E-value: 4.91e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVvAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd17624     1 ILLVEDDALLGDGLKTGLRKAGYAV-DWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILTAR 79


                  ..
gi 1125360769 101 DQ 102
Cdd:cd17624    80 DG 81
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 21-102 5.12e-11

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: 57.45  E-value: 5.12e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd19935     1 ILVVEDEKKLAEYLKKGLTEEGYAVDV-AYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAAGKQTPVLMLTAR 79


                  ..
gi 1125360769 101 DQ 102
Cdd:cd19935    80 DS 81
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 23-120 7.99e-11

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: 56.90  E-value: 7.99e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  23 LADDHPMLRHGVRALLERHGV-AVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALD 101
Cdd:cd17565     3 IVDDDKNIIKILSDIIEDDDLgEVVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMISQVS 82

                          90
                  ....*....|....*....
gi 1125360769 102 QERLVTAAVSAGVRGFVLK 120
Cdd:cd17565    83 DKEMIGKAYQAGIEFFINK 101
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 19-134 8.00e-11

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY3, Escherichia coli CheY, and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381150 [Multi-domain]  Cd Length: 119  Bit Score: 57.35  E-value: 8.00e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREI--AETCPETRVVL 96
Cdd:cd19923     1 MKVLVVDDFSTMRRIIKNLLKELGFNNVEEAEDGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIraDGALSHLPVLM 80

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1125360769  97 LTALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:cd19923    81 VTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKI 118
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 22-101 9.03e-11

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: 56.75  E-value: 9.03e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  22 ILA-DDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETR---VVLL 97
Cdd:cd19920     1 ILIvDDVPDNLRLLSELLRAAGYRVLV-ATDGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKAD-PATRhipVIFL 78


                  ....
gi 1125360769  98 TALD 101
Cdd:cd19920    79 TALT 82
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 20-120 9.72e-11

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: 57.18  E-value: 9.72e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETR---VVL 96
Cdd:cd17552     3 RILVIDDEEDIREVVQACLEKLAGWEVLTASSGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQAN-PETQsipVIL 81

                          90       100
                  ....*....|....*....|....
gi 1125360769  97 LTALDQERLVTAAVSAGVRGFVLK 120
Cdd:cd17552    82 LTAKAQPSDRQRFASLGVAGVIAK 105
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 25-133 1.89e-10

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: 56.44  E-value: 1.89e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  25 DDHPMLRHGVRALLERHGvAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALDQER 104
Cdd:cd17555     7 DDDEVVRESIAAYLEDSG-FQVLQAADGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIVVSGAGVMS 85

                          90       100       110
                  ....*....|....*....|....*....|
gi 1125360769 105 LVTAAVSAGVRGFVLKTQAE-EDLVQAIEQ 133
Cdd:cd17555    86 DAVEALRLGAWDYLTKPIEDlAVLEHAVRR 115
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 21-113 3.07e-10

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


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 55.25  E-value: 3.07e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETRVVLLTAL 100
Cdd:cd17620     1 ILVIEDEPQIRRFLRTALEAHGYRVF-EAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLREW-SAVPVIVLSAR 78

                          90
                  ....*....|...
gi 1125360769 101 DQERLVTAAVSAG 113
Cdd:cd17620    79 DEESDKIAALDAG 91
PRK11697 PRK11697
two-component system response regulator BtsR;
19-102 4.50e-10

two-component system response regulator BtsR;


Pssm-ID: 236956 [Multi-domain]  Cd Length: 238  Bit Score: 57.55  E-value: 4.50e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERHG-VAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAareIAETCPET--RVV 95
Cdd:PRK11697    2 IKVLIVDDEPLAREELRELLQEEGdIEIVGECSNAIEAIGAIHRLKPDVVFLDIQMPRISGLEL---VGMLDPEHmpYIV 78


                  ....*..
gi 1125360769  96 LLTALDQ 102
Cdd:PRK11697   79 FVTAFDE 85
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 19-120 6.55e-10

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: 54.54  E-value: 6.55e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHpmlRHGVRALLE----RHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAET--CPET 92
Cdd:cd17561     2 IKVLIADDN---REFVQLLEEylnsQPDMEVVGVAHNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLRRMrlEKRP 78

                          90       100
                  ....*....|....*....|....*...
gi 1125360769  93 RVVLLTALDQERLVTAAVSAGVRGFVLK 120
Cdd:cd17561    79 KIIMLTAFGQEDITQRAVELGASYYILK 106
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 21-134 8.63e-10

DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443624 [Multi-domain]  Cd Length: 177  Bit Score: 56.08  E-value: 8.63e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:COG4567     7 LLLVDDDEAFARVLARALERRGFEVTT-AASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDARIVVLTGY 85

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:COG4567    86 ASIATAVEAIKLGADDYLAKPADADDLLAALERA 119
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 21-121 3.01e-09

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


Pssm-ID: 381137 [Multi-domain]  Cd Length: 116  Bit Score: 53.15  E-value: 3.01e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEaSDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIaETCPETRVVLLTAL 100
Cdd:cd17622     3 ILLVEDDPKLARLIADFLESHGFNVVVE-HRGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDL-RPKYQGPILLLTAL 80

                          90       100
                  ....*....|....*....|.
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKT 121
Cdd:cd17622    81 DSDIDHILGLELGADDYVVKP 101
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 22-134 4.63e-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: 52.69  E-value: 4.63e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  22 ILA-DDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPE---TRVVLL 97
Cdd:cd17562     3 ILAvDDSASIRQMVSFTLRGAGYEVV-EAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKL-PAykfTPILML 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:cd17562    81 TTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 21-99 7.55e-09

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: 51.92  E-value: 7.55e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETRVVLLTA 99
Cdd:cd17623     1 ILLIDDDRELTELLTEYLEMEGFNVRA-AHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKT-SQVPVLMLTA 77
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 21-103 9.52e-09

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: 51.66  E-value: 9.52e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETRVVLLTAL 100
Cdd:cd17614     1 ILVVDDEKPISDILKFNLTKEGYEVVT-AYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVRKT-SNVPIIMLTAK 78


                  ...
gi 1125360769 101 DQE 103
Cdd:cd17614    79 DSE 81
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 19-119 1.09e-08

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: 51.67  E-value: 1.09e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLT 98
Cdd:cd17530     1 LRVLVLDDDPFQCMMAATILEDLGPGNVDEADDGREALVILLCNAPDIIICDLKMPDMDGIEFLRHLAESHSNAAVILMS 80

                          90       100
                  ....*....|....*....|.
gi 1125360769  99 ALDQERLVTAAVSAGVRGFVL 119
Cdd:cd17530    81 GLDGGILESAETLAGANGLNL 101
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 21-120 1.15e-08

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


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 51.51  E-value: 1.15e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd19934     1 LLLVEDDALLAAQLKEQLSDAGYVVDV-AEDGEEALFQGEEEPYDLVVLDLGLPGMDGLSVLRRWRSEGRATPVLILTAR 79

                          90       100
                  ....*....|....*....|
gi 1125360769 101 DQERLVTAAVSAGVRGFVLK 120
Cdd:cd19934    80 DSWQDKVEGLDAGADDYLTK 99
pleD PRK09581
response regulator PleD; Reviewed
 46-102 1.80e-08

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 53.75  E-value: 1.80e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  46 VAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETR---VVLLTALDQ 102
Cdd:PRK09581   29 VLTASSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKSD-PATThipVVMVTALDD 87
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 21-133 2.34e-08

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


Pssm-ID: 381113 [Multi-domain]  Cd Length: 118  Bit Score: 50.48  E-value: 2.34e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd17569     3 ILLVDDEPNILKALKRLLRREGYEVL-TATSGEEALEILKQEPVDVVISDQRMPGMDGAELLKRVRERYPDTVRILLTGY 81

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1125360769 101 DQERLVTAAVSAG-VRGFVLKTQAEEDLVQAIEQ 133
Cdd:cd17569    82 ADLDAAIEAINEGeIYRFLTKPWDDEELKETIRQ 115
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 21-106 2.55e-08

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: 50.07  E-value: 2.55e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNG---IDAAREIAETC--PetrVV 95
Cdd:cd19927     1 ILLVDDDPGIRLAVKDYLEDQGFTVIA-ASNGLEALDLLNQYIPDLIISDIIMPGVDGyslLGKLRKNADFDtiP---VI 76

                          90
                  ....*....|...
gi 1125360769  96 LLTA--LDQERLV 106
Cdd:cd19927    77 FLTAkgMTSDRIK 89
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 21-85 2.59e-08

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: 50.60  E-value: 2.59e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREhHPDV--AILDIMMPLLNGIDAAREI 85
Cdd:cd17544     3 VLVVDDSATSRNHLRALLRRHNFQVL-EAANGQEALEVLEQ-HPDIklVITDYNMPEMDGFELVREI 67
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 20-134 3.14e-08

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: 50.33  E-value: 3.14e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREI--AETCPETRVVLL 97
Cdd:cd17618     2 TILIVEDEPAIREMIAFNLERAGFDVV-EAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLkrDEMTRDIPIIML 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:cd17618    81 TARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAV 117
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
25-187 3.66e-08

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 52.58  E-value: 3.66e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  25 DDHPMLRHGV-RALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPeTRVVLLTALDQE 103
Cdd:PRK12555    7 NDSPLAVEALrRALARDPDHEVVWVATDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRIMAERP-CPILIVTSLTER 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769 104 --RLVTAAVSAGVRGFVLK---------TQAEEDLVQAIEQVSRggfyvgggvsqaVVEACRAAAAQERGRLTSRERQVV 172
Cdd:PRK12555   86 naSRVFEAMGAGALDAVDTptlgigaglEEYAAELLAKIDQIGR------------LLGRRLAPAAAPAAASAAPFRTTP 153

                         170
                  ....*....|....*
gi 1125360769 173 QLVAEGKSTKQVAAL 187
Cdd:PRK12555  154 RLVAIGASAGGPAAL 168
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 19-134 4.54e-08

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: 49.84  E-value: 4.54e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGV-RALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLL 97
Cdd:cd17593     1 MKVLICDDSSMARKQLaRALPADWDVEIT-FAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQLETKVIVV 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQV 134
Cdd:cd17593    80 SGDVQPEAKERVLELGALAFLKKPFDPEKLAQLLEEL 116
PRK10610 PRK10610
chemotaxis protein CheY;
18-134 9.23e-08

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 49.20  E-value: 9.23e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  18 SLQVILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAE--TCPETRVV 95
Cdd:PRK10610    5 ELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDGLELLKTIRAdgAMSALPVL 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1125360769  96 LLTALDQERLVTAAVSAGVRGFVLK--TQA--EEDLVQAIEQV 134
Cdd:PRK10610   85 MVTAEAKKENIIAAAQAGASGYVVKpfTAAtlEEKLNKIFEKL 127
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 25-103 1.09e-07

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: 48.81  E-value: 1.09e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  25 DDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREI--AETCPETRVVLLTALDQ 102
Cdd:cd19937     4 DDEEDIVELLKYNLEKEGYEVVT-AYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILrsDPKTSSIPIIMLTAKGE 82


                  .
gi 1125360769 103 E 103
Cdd:cd19937    83 E 83
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 21-136 1.30e-07

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: 48.53  E-value: 1.30e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVvAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd17627     1 ILVVDDDRAVRESLRRSLRFEGYEV-ETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAGNDLPILVLTAR 79

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:cd17627    80 DSVSDRVAGLDAGADDYLVKPFALEELLARVRALLR 115
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 21-133 1.87e-07

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


Pssm-ID: 381101 [Multi-domain]  Cd Length: 130  Bit Score: 48.64  E-value: 1.87e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd17549     1 VLLVDDDADVREALQQTLELAGFRVRA-FADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELDPDLPVILITGH 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQ 133
Cdd:cd17549    80 GDVPMAVEAMRAGAYDFLEKPFDPERLLDVVRR 112
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 25-98 4.18e-07

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


Pssm-ID: 381111 [Multi-domain]  Cd Length: 112  Bit Score: 47.05  E-value: 4.18e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1125360769  25 DDHPMLRHGVRALlERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLT 98
Cdd:cd17563     8 DDEVFAERLARAL-ERRGFEVET-AHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRALQPDARIVVLT 79
orf27 CHL00148
Ycf27; Reviewed
 20-102 4.95e-07

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 48.94  E-value: 4.95e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIdaareiaETCPETR------ 93
Cdd:CHL00148    8 KILVVDDEAYIRKILETRLSIIGYEVI-TASDGEEALKLFRKEQPDLVILDVMMPKLDGY-------GVCQEIRkesdvp 79


                  ....*....
gi 1125360769  94 VVLLTALDQ 102
Cdd:CHL00148   80 IIMLTALGD 88
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 20-131 1.28e-06

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


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 45.92  E-value: 1.28e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVvAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETRVVLLTA 99
Cdd:cd17626     2 RILVVDDDAALAEMIGIVLRGEGFDP-AFCGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVCRQIRAE-SGVPIVMLTA 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAI 131
Cdd:cd17626    80 KSDTVDVVLGLESGADDYVAKPFKPKELVARI 111
REC_ETR-like cd19933
phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and ...
 19-120 1.41e-06

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: 45.85  E-value: 1.41e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERHGVAVVAeASDGRTA--AAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETR--- 93
Cdd:cd19933     1 LKVLLVDDNAVNRMVTKGLLEKLGCEVTT-VSSGEEClnLLASAEHSFQLVLLDLCMPEMDGFEVALRIRKLFGRRErpl 79

                          90       100
                  ....*....|....*....|....*..
gi 1125360769  94 VVLLTALDQERLVTAAVSAGVRGFVLK 120
Cdd:cd19933    80 IVALTANTDDSTREKCLSLGMNGVITK 106
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 25-98 1.49e-06

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: 45.57  E-value: 1.49e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1125360769  25 DDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLT 98
Cdd:cd17550     5 DDEEDIRESLSGILEDEGYEVDT-AADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYPDLPVIMIS 77
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
20-136 1.69e-06

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 47.49  E-value: 1.69e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAArEHHPDVAILDIMMPLLNGIDAAREIAETcPETRVVLLTA 99
Cdd:PRK10955    3 KILLVDDDRELTSLLKELLEMEGFNVIV-AHDGEQALDLL-DDSIDLLLLDVMMPKKNGIDTLKELRQT-HQTPVIMLTA 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:PRK10955   80 RGSELDRVLGLELGADDYLPKPFNDRELVARIRAILR 116
PRK15347 PRK15347
two component system sensor kinase;
6-137 1.70e-06

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 48.10  E-value: 1.70e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769   6 LYRRAQ------PAEDRV-------SLQVILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIM 72
Cdd:PRK15347  665 LYDLLQqiiqgaPNEPVInlplqpwQLQILLVDDVETNRDIIGMMLVELGQQVTT-AASGTEALELGRQHRFDLVLMDIR 743

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1125360769  73 MPLLNGIDAAR----EIAETCPETRVVLLTA----LDQERlvtaAVSAGVRGFVLKTQAEEDLVQAIE-----QVSRG 137
Cdd:PRK15347  744 MPGLDGLETTQlwrdDPNNLDPDCMIVALTAnaapEEIHR----CKKAGMNHYLTKPVTLAQLARALElaaeyQLLRG 817
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 21-103 4.43e-06

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: 43.97  E-value: 4.43e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEAsDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAE--TCPetrVVLLT 98
Cdd:cd19936     1 IALVDDDRNILTSVSMALEAEGFSVETYT-DGASALDGLNARPPDLAILDIKMPRMDGMELLQRLRQksTLP---VIFLT 76


                  ....*
gi 1125360769  99 ALDQE 103
Cdd:cd19936    77 SKDDE 81
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 46-99 8.55e-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: 8.55e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1125360769  46 VAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:cd17572    25 VTHVETGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSLPTSVIVITA 78
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
154-225 9.41e-06

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 44.69  E-value: 9.41e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1125360769 154 RAAAAQERGRLTSRERQVVQ-LVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLIA 225
Cdd:COG2909   112 RALALRALGDREEALAALRRrLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVARARELGLLA 184
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 20-113 1.48e-05

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


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 42.93  E-value: 1.48e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA 99
Cdd:cd17553     2 KILIVDDQYGIRILLNEVFNKEGYQTF-QAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDENIRVIIMTA 80

                          90
                  ....*....|....
gi 1125360769 100 LDQERLVTAAVSAG 113
Cdd:cd17553    81 YGELDMIQESKELG 94
PRK10188 PRK10188
transcriptional regulator SdiA;
163-224 1.74e-05

transcriptional regulator SdiA;


Pssm-ID: 182292 [Multi-domain]  Cd Length: 240  Bit Score: 44.39  E-value: 1.74e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1125360769 163 RLTSRERQVVQLVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYAIREGLI 224
Cdd:PRK10188  179 NFSKREKEILKWTAEGKTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQIACYAAATGLI 240
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 21-114 1.80e-05

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: 42.33  E-value: 1.80e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAArEHHPDVAIL--DIMMP-LLNGIDAAREIAETCPETRVVLL 97
Cdd:cd18161     1 VLVVEDDPDVRRLTAEVLEDLGYTVL-EAASGDEALDLL-ESGPDIDLLvtDVIMPgGMNGSQLAEEARRRRPDLKVLLT 78

                          90
                  ....*....|....*..
gi 1125360769  98 TALDQERLVTAAVSAGV 114
Cdd:cd18161    79 SGYAENAIEGGDLAPGV 95
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 21-98 2.60e-05

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: 42.10  E-value: 2.60e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLT 98
Cdd:cd18160     2 ILLADDEPSVRKFIVTTLKKAGYAVTEAESGAEALEKLQQGKDIDIVVTDIVMPEMDGIELAREARKIDPDVKILFIS 79
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
19-133 3.55e-05

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 43.87  E-value: 3.55e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERHGVAVvAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLT 98
Cdd:PRK10365    6 IDILVVDDDISHCTILQALLRGWGYNV-ALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMT 84

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1125360769  99 ALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQ 133
Cdd:PRK10365   85 AYSSVETAVEALKTGALDYLIKPLDFDNLQATLEK 119
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 21-121 3.59e-05

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 43.47  E-value: 3.59e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEaSDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETrVVLLTAL 100
Cdd:PRK10701    4 IVFVEDDAEVGSLIAAYLAKHDIDVTVE-PRGDRAEATILREQPDLVLLDIMLPGKDGMTICRDLRPKWQGP-IVLLTSL 81

                          90       100
                  ....*....|....*....|.
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKT 121
Cdd:PRK10701   82 DSDMNHILALEMGACDYILKT 102
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 20-99 4.38e-05

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: 41.59  E-value: 4.38e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIaETCPETRVVLLTA 99
Cdd:cd19938     1 RILIVEDEPKLAQLLIDYLRAAGYAPTL-LAHGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREI-RRFSDVPIIMVTA 78
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 21-133 4.62e-05

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


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 41.43  E-value: 4.62e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEASdGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd17537     3 VYVVDDDEAVRDSLAFLLRSVGLAVKTFTS-ASAFLAAAPPDQPGCLVLDVRMPGMSGLELQDELLARGSNIPIIFITGH 81

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1125360769 101 DQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQ 133
Cdd:cd17537    82 GDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQ 114
REC_PhyR cd17540
phosphoacceptor receiver (REC) domain of response regulator PhyR and similar proteins; PhyR is ...
 21-107 5.25e-05

phosphoacceptor receiver (REC) domain of response regulator PhyR and similar proteins; PhyR is a hybrid stress regulator that contains an N-terminal sigma-like (SL) domain and a C-terminal REC domain. Phosphorylation of the REC domain is known to promote binding of the SL domain to an anti-sigma factor. PhyR thus functions as an anti-anti-sigma factor in its phosphorylated state. It is involved in the general stress response. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381095 [Multi-domain]  Cd Length: 117  Bit Score: 41.47  E-value: 5.25e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMP-LLNGIDAAREIAETCpETRVVLLTA 99
Cdd:cd17540     3 VLIIEDEPLIAMDLEQIVEDLGHQVVGIARTRDEAVALARRERPDLILADIQLAdGSSGIDAVNEILTTH-DVPVIFVTA 81


                  ....*...
gi 1125360769 100 LdQERLVT 107
Cdd:cd17540    82 Y-PERLLT 88
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 21-137 5.34e-05

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


Pssm-ID: 381117 [Multi-domain]  Cd Length: 128  Bit Score: 41.62  E-value: 5.34e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIaETCPETR---VVLL 97
Cdd:cd17575     3 VLLVDDQAIIGEAVRRALADEEDIDFHYCSDPTEAIEVASQIKPTVILQDLVMPGVDGLTLVRFF-RANPATRdipIIVL 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRG 137
Cdd:cd17575    82 STKEEPEVKSEAFALGANDYLVKLPDKIELVARIRYHSRS 121
PRK11517 PRK11517
DNA-binding response regulator HprR;
19-129 5.68e-05

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 42.58  E-value: 5.68e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERHGVaVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIaETCPETRVVLLT 98
Cdd:PRK11517    1 MKILLIEDNQRTQEWVTQGLSEAGY-VIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTL-RTAKQTPVICLT 78

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1125360769  99 ALDqerlvtaAVSAGVRGfvLKTQAEEDLVQ 129
Cdd:PRK11517   79 ARD-------SVDDRVRG--LDSGANDYLVK 100
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 21-87 5.99e-05

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: 41.20  E-value: 5.99e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEaSDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAE 87
Cdd:cd19939     2 ILIVEDELELARLTRDYLIKAGLEVSVF-TDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVRE 67
PRK10816 PRK10816
two-component system response regulator PhoP;
19-136 6.29e-05

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 42.80  E-value: 6.29e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLT 98
Cdd:PRK10816    1 MRVLVVEDNALLRHHLKVQLQDAGHQVDA-AEDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRSNDVSLPILVLT 79

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1125360769  99 ALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:PRK10816   80 ARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR 117
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
11-102 7.09e-05

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 43.57  E-value: 7.09e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769   11 QPAEDRVSLQVILADDHPMLRHGVRALLERHGVAVvAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCP 90
Cdd:PRK09959   951 QPITLPEKLSILIADDHPTNRLLLKRQLNLLGYDV-DEATDGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQNS 1029

                           90
                   ....*....|..
gi 1125360769   91 ETRVVLLTALDQ 102
Cdd:PRK09959  1030 SLPIWGLTANAQ 1041
REC_LytTR_AgrA-like cd17533
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AgrA; ...
 69-133 1.26e-04

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


Pssm-ID: 381088 [Multi-domain]  Cd Length: 131  Bit Score: 40.68  E-value: 1.26e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1125360769  69 LDIMMPLLNGIDAAREIAETCPETRVVLLTALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQ 133
Cdd:cd17533    59 IDIKMEEKNGLEVAQKIRKYDPYAIIIFVTTHSEFAPLTFEYKVAALDFILKPLKLEEFKKRIEE 123
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 10-85 1.34e-04

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 42.53  E-value: 1.34e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1125360769  10 AQPAEDRVSLQVILADDHP---MLrhgVRALLERHgVAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREI 85
Cdd:PRK11107  659 PPTDESRLPLTVMAVDDNPanlKL---IGALLEEQ-VEHVVLCDSGHQAVEQAKQRPFDLILMDIQMPGMDGIRACELI 733
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
20-136 1.38e-04

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 41.63  E-value: 1.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETC--PETRVVLL 97
Cdd:PRK10161    4 RILVVEDEAPIREMVCFVLEQNGFQPV-EAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKRESmtRDIPVVML 82

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1125360769  98 TALDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:PRK10161   83 TARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMR 121
PRK11173 PRK11173
two-component response regulator; Provisional
 20-103 2.03e-04

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 41.15  E-value: 2.03e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  20 QVILADDHPMLRHGVRALLERHGVaVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAEtcpETRVVL--L 97
Cdd:PRK11173    5 HILIVEDELVTRNTLKSIFEAEGY-DVFEATDGAEMHQILSENDINLVIMDINLPGKNGLLLARELRE---QANVALmfL 80


                  ....*.
gi 1125360769  98 TALDQE 103
Cdd:PRK11173   81 TGRDNE 86
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 21-127 2.65e-04

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: 39.15  E-value: 2.65e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAARE--HHPDVAILDIMMPLLNGIDAAREIAETCpETRVVLLT 98
Cdd:cd17584     1 VLVVDDDPTCLAILKRMLLRCGYQVTT-CTDAEEALSMLREnkDEFDLVITDVHMPDMDGFEFLELIRLEM-DLPVIMMS 78

                          90       100
                  ....*....|....*....|....*....
gi 1125360769  99 ALDQERLVTAAVSAGVRGFVLKTQAEEDL 127
Cdd:cd17584    79 ADGSTSTVMKGLAHGACDYLLKPVSIEDL 107
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 21-120 3.52e-04

phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is part of the VirA/VirG two-component system that regulates the expression of virulence (vir) genes. The histidine kinase VirA senses a phenolic wound response signal, undergoes autophosphorylation, and phosphorelays to the VirG response regulator, which induces transcription of the vir regulon. VirG belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381125 [Multi-domain]  Cd Length: 113  Bit Score: 38.97  E-value: 3.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd17594     2 VLVVDDDAAMRHLLILYLRERGFDVTA-AADGAEEARLMLHRRVDLVLLDLRLGQESGLDLLRTIRARSDVPIIIISGDR 80

                          90       100
                  ....*....|....*....|
gi 1125360769 101 DQERLVTAAVSAGVRGFVLK 120
Cdd:cd17594    81 RDEIDRVVGLELGADDYLAK 100
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 163-206 3.99e-04

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


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 39.64  E-value: 3.99e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1125360769 163 RLTSRERQVVQLVA-EGKSTKQVAALLGITLKTAEFHRARVMKKL 206
Cdd:TIGR02937 110 KLPEREREVLVLRYlEGLSYKEIAEILGISVGTVKRRLKRARKKL 154
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 21-103 4.05e-04

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


Pssm-ID: 381134 [Multi-domain]  Cd Length: 113  Bit Score: 38.91  E-value: 4.05e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVaEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCpETRVVLLTAL 100
Cdd:cd17619     3 ILIVEDEPVTRATLKSYFEQEGYDVS-EAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELREQS-EVGIILVTGR 80


                  ...
gi 1125360769 101 DQE 103
Cdd:cd17619    81 DDE 83
InsA COG3677
Transposase InsA [Mobilome: prophages, transposons];
169-221 4.56e-04

Transposase InsA [Mobilome: prophages, transposons];


Pssm-ID: 442893 [Multi-domain]  Cd Length: 241  Bit Score: 40.24  E-value: 4.56e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1125360769 169 RQVVQLVAEGKSTKQVAALLGITLKTAEFHRARVMKKL-DVHDVAGLVRYAIRE 221
Cdd:COG3677    66 LQAIRLLLNGISLRQIARVLGVSYKTVWRWLHRIREALdELVDEVDEGEGLVGE 119
PRK10336 PRK10336
two-component system response regulator QseB;
19-101 5.39e-04

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 39.88  E-value: 5.39e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  19 LQVILADDHPMLRHGVRALLERHGVAVvAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLT 98
Cdd:PRK10336    1 MRILLIEDDMLIGDGIKTGLSKMGFSV-DWFTQGRQGKEALYSAPYDAVILDLTLPGMDGRDILREWREKGQREPVLILT 79


                  ...
gi 1125360769  99 ALD 101
Cdd:PRK10336   80 ARD 82
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 50-112 5.49e-04

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: 38.41  E-value: 5.49e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1125360769  50 SDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTA---LDqerlvtAAVSA 112
Cdd:cd19919    31 ENAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVIIMTAhsdLD------SAVSA 90
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 163-206 6.26e-04

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


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 36.67  E-value: 6.26e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1125360769 163 RLTSRERQVVQL-VAEGKSTKQVAALLGITLKTAEFHRARVMKKL 206
Cdd:pfam08281  10 ELPPRQREVFLLrYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 77-218 7.08e-04

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 39.34  E-value: 7.08e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  77 NGIDAAREIAETCPETRVVLLTALDQE-RLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSRGgfyvgggvSQAVVE--AC 153
Cdd:PRK11475   54 EGLSCLTELAIKFPRMRRLVIADDDIEaRLIGSLSPSPLDGVLSKASTLEILQQELFLSLNG--------VRQATDrlNN 125

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1125360769 154 RAAAAQERgRLTSRERQVVQLVAEGKSTKQVAALLGITLKTAEFHRARVMKKLDVHDVAGLVRYA 218
Cdd:PRK11475  126 QWYINQSR-MLSPTEREILRFMSRGYSMPQIAEQLERNIKTIRAHKFNVMSKLGVSSDAGLLDAA 189
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 52-106 9.46e-04

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 39.17  E-value: 9.46e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1125360769  52 GRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALDQE--RLV 106
Cdd:PRK11083   36 GLPALDKLRQQPPDLVILDVGLPDISGFELCRQLLAFHPALPVIFLTARSDEvdRLV 92
PRK10693 PRK10693
two-component system response regulator RssB;
47-120 1.51e-03

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 38.82  E-value: 1.51e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1125360769  47 AEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTALDQERLVTAAVSAGVRGFVLK 120
Cdd:PRK10693    1 VLAANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADIAKALRLGVQDVLLK 74
psREC_PRR cd17582
pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response ...
 21-120 1.83e-03

pseudo receiver domain of pseudo-response regulators; In Arabidopsis, five pseudo-response regulators (PRRs), also called APRRs, comprise a core group of clock components that controls the pace of the central oscillator of the circadian clock, an endogenous time-keeping mechanism that enables organisms to adapt to external daily cycles. The coordinated sequential expression of PRR9 (APRR9), PRR7 (APRR7), PRR5 (APRR5), PRR3 (APRR3), and PRR1 (APRR1) results in circadian waves that may be at the basis of the endogenous circadian clock. PRRs contain an N-terminal pseudo receiver (psREC) domain that resembles the receiver domain of a two-component response regulator, but lacks an aspartate residue that accepts a phosphoryl group from the sensor kinase, and a CCT motif at the C-terminus that contains a putative nuclear localization signal. The psREC domain is involved in protein-protein interactions.


Pssm-ID: 381120 [Multi-domain]  Cd Length: 104  Bit Score: 36.61  E-value: 1.83e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLeRHGVAVVAEASDGRTAAAAARE--HHPDVAILDIMMPLLNGIDAAREIAE--TCPETRVVL 96
Cdd:cd17582     1 VLLVENDDSTRQIVTALL-RKCSYEVTAASDGLQAWDVLEDeqNEIDLILTEVDLPVSSGFKLLSYIMRhkICKNIPVIM 79

                          90       100
                  ....*....|....*....|....
gi 1125360769  97 LTALDQERLVTAAVSAGVRGFVLK 120
Cdd:cd17582    80 MSSQDSVGVVFKCLSKGAADYLVK 103
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 21-120 2.40e-03

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: 36.41  E-value: 2.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVvAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETRVVLLTAL 100
Cdd:cd17621     1 VLVVEDEESFSDPLAYLLRKEGFEV-TVATDGPAALAEFDRAGADIVLLDLMLPGLSGTEVCRQLRAR-SNVPVIMVTAK 78

                          90       100
                  ....*....|....*....|
gi 1125360769 101 DQERLVTAAVSAGVRGFVLK 120
Cdd:cd17621    79 DSEIDKVVGLELGADDYVTK 98
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 21-98 2.54e-03

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


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 36.19  E-value: 2.54e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREI--AETCPETRVVLLT 98
Cdd:cd17602     1 VACVDDRPSIQKMIEYFLEKQGFRVVV-IDDPLRALTTLLNSKPDLILIDIDMPDLDGYELCSLLrkSSALKDTPIIMLT 79
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 21-116 2.58e-03

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


Pssm-ID: 381155 [Multi-domain]  Cd Length: 100  Bit Score: 36.33  E-value: 2.58e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAEASdGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAl 100
Cdd:cd19928     1 ILVADDDRAIRTVLTQALGRAGYEVRTTGN-AATLWRWVEEGEGDLVITDVVMPDENGLDLIPRIKKARPDLPIIVMSA- 78

                          90
                  ....*....|....*.
gi 1125360769 101 dQERLVTaAVSAGVRG 116
Cdd:cd19928    79 -QNTLMT-AVKAAERG 92
REC_HupR cd17596
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of ...
 21-136 2.82e-03

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR); Members of this subfamily are response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It belongs to the nitrogen regulatory protein C (NtrC) family of response regulators, which activate transcription by RNA polymerase (RNAP) in response to a change in the environment. HupR is an unusual member of this family as it activates transcription when unphosphorylated, and transcription is inhibited by phosphorylation. Proteins in this subfamily contain an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381127 [Multi-domain]  Cd Length: 133  Bit Score: 36.58  E-value: 2.82e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHgvAVVAEASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPET-RVVLLTA 99
Cdd:cd17596     3 ILVVDDEVRSLEALRRTLEED--FDVLTAASAEEALAILEEEWVQVILCDQRMPGTTGVEFLKEVRERWPEVvRIIISGY 80

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLKTQAEEDLVQAIEQVSR 136
Cdd:cd17596    81 TDSEDIIAGINEAGIYQYLTKPWHPDQLLLTVRNAAR 117
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 21-120 3.38e-03

phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR and similar proteins; Pseudomonas aeruginosa PilR is the response regulator of the PilS/PilR two-component regulatory system (PilSR TCS) that acts in conjunction with sigma-54 to regulate the expression of type 4 pilus (T4P) major subunit PilA. In addition, the PilSR TCS regulates flagellum-dependent swimming motility and pilus-dependent twitching motility. PilR contains an N-terminal REC domain, a central sigma-54 interaction domain, and a C-terminal Fis-type helix-turn-helix DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 35.98  E-value: 3.38e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVVAeASDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETCPETRVVLLTAL 100
Cdd:cd19926     1 VLVVDDEPDIRELLEITLGRMGLDVRS-ARNVKEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQRLPQTPVAVITAY 79

                          90       100
                  ....*....|....*....|
gi 1125360769 101 DQERLVTAAVSAGVRGFVLK 120
Cdd:cd19926    80 GSLDTAIEALKAGAFDFLTK 99
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 163-206 4.06e-03

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


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 36.90  E-value: 4.06e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1125360769 163 RLTSRERQVVQLVA-EGKSTKQVAALLGITLKTAEFHRARVMKKL 206
Cdd:COG1595   127 RLPPRQREVLVLRYlEGLSYAEIAEILGISEGTVKSRLSRARKKL 171
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 50-103 4.72e-03

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 36.97  E-value: 4.72e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1125360769  50 SDGRTAAAAAREHHPDVAILDIMMPLLNGIDAAREIAETcPETRVVLLTALDQE 103
Cdd:PRK10710   41 SHGDEVLPYVRQTPPDLILLDLMLPGTDGLTLCREIRRF-SDIPIVMVTAKIEE 93
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 21-120 5.03e-03

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 37.09  E-value: 5.03e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769  21 VILADDHPMLRHGVRALLERHGVAVV-AEASDGRTAAAAAREhhPDVAILDIMMPLLNGIDAAREIAETCPeTRVVLLTA 99
Cdd:PRK10529    4 VLIVEDEQAIRRFLRTALEGDGMRVFeAETLQRGLLEAATRK--PDLIILDLGLPDGDGIEFIRDLRQWSA-IPVIVLSA 80

                          90       100
                  ....*....|....*....|.
gi 1125360769 100 LDQERLVTAAVSAGVRGFVLK 120
Cdd:PRK10529   81 RSEESDKIAALDAGADDYLSK 101
PRK13557 PRK13557
histidine kinase; Provisional
 9-98 6.61e-03

histidine kinase; Provisional


Pssm-ID: 237425 [Multi-domain]  Cd Length: 540  Bit Score: 37.34  E-value: 6.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125360769   9 RAQPAEDRVSLQVIL-ADDHPMLRHGVRALLERHGVaVVAEASDGRTAAAAAREH-HPDVAILDIMMP-LLNGIDAAREI 85
Cdd:PRK13557  405 PKARAIDRGGTETILiVDDRPDVAELARMILEDFGY-RTLVASNGREALEILDSHpEVDLLFTDLIMPgGMNGVMLAREA 483

                          90
                  ....*....|...
gi 1125360769  86 AETCPETRVVLLT 98
Cdd:PRK13557  484 RRRQPKIKVLLTT 496
 
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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