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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIDIILAEIDLPMAKGMKMLRYITRDKDLRRIPVIMM 100
Cdd:cd17582   1 VLLVENDDSTRQIVTALLRKCSYEVTAASDGLQAWDVLEDEQNEIDLILTEVDLPVSSGFKLLSYIMRHKICKNIPVIMM 80

                        90       100
                ....*....|....*....|....
gi 15240235 101 SRQDEVPVVVKCLKLGAADYLVKP 124
Cdd:cd17582  81 SSQDSVGVVFKCLSKGAADYLVKP 104

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIDIILAEIDLPMAKGMKMLRYITRDKDLRRIPVIMM 100
Cdd:cd17582   1 VLLVENDDSTRQIVTALLRKCSYEVTAASDGLQAWDVLEDEQNEIDLILTEVDLPVSSGFKLLSYIMRHKICKNIPVIMM 80

                        90       100
                ....*....|....*....|....
gi 15240235 101 SRQDEVPVVVKCLKLGAADYLVKP 124
Cdd:cd17582  81 SSQDSVGVVFKCLSKGAADYLVKP 104

CCT motif; This short motif is found in a number of plant proteins. It is rich in basic amino acids and has been called a CCT motif after Co, Col and Toc1. The CCT motif is about 45 amino acids long and contains a putative nuclear localization signal within the second half of the CCT motif. Toc1 mutants have been identified in this region.

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 15240235   533 REEALLKFRRKRNQRCFDKKIRYVNRKRLAERRPRVKGQFVRK 575
Cdd:pfam06203   1 REEALLRYREKRKTRKFDKKIRYESRKALADKRPRVKGRFVKA 43

type-a response regulator protein; Provisional

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235   17 SRVRILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVI--------DALNAEGP----------DIDIILAEIDLPMAK 78
Cdd:PLN03029   7 SQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALkflglhedDRSNPDTPsvspnshqevEVNLIITDYCMPGMT 86

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15240235   79 GMKMLRYITRDKDLRRIPVIMMSRQDEVPVVVKCLKLGAADYLVKPLRTNELLNLWTHMWRRR 141
Cdd:PLN03029  87 GYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHMMKTK 149

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIDIILAEIDLPMAKGMKMLRYITRDKDLRRIPVIMM 100
Cdd:cd17582   1 VLLVENDDSTRQIVTALLRKCSYEVTAASDGLQAWDVLEDEQNEIDLILTEVDLPVSSGFKLLSYIMRHKICKNIPVIMM 80

                        90       100
                ....*....|....*....|....
gi 15240235 101 SRQDEVPVVVKCLKLGAADYLVKP 124
Cdd:cd17582  81 SSQDSVGVVFKCLSKGAADYLVKP 104

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

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  18 RVRILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYITRDKDLRRIPV 97
Cdd:COG3706   1 PARILVVDDDPTNRKLLRRLLEAAGYEVVEAADGEEALELLQEHRPDL--ILLDLEMPDMDGLELCRRLRADPRTADIPI 78

                        90       100       110
                ....*....|....*....|....*....|....
gi 15240235  98 IMMSRQDEVPVVVKCLKLGAADYLVKPLRTNELL 131
Cdd:COG3706  79 IFLTALDDEEDRARALEAGADDYLTKPFDPEELL 112

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator Spo0F [Signal transduction mechanisms];

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  15 DRSRVRILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYITRDKDLRR 94
Cdd:COG0784   2 PLGGKRILVVDDNPDNRELLRRLLERLGYEVTTAEDGAEALELLRAGPPDL--ILLDINMPGMDGLELLRRIRALPRLPD 79

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 15240235  95 IPVIMMSRQDEVPVVVKCLKLGAADYLVKPLRTNELLNL 133
Cdd:COG0784  80 IPIIALTAYADEEDRERALEAGADDYLTKPVDPEELLEA 118

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

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  18 RVRILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDI---DIILAEIDlpmakGMKMLRYITRDKdlRR 94
Cdd:COG0745   1 MPRILVVEDDPDIRELLADALEREGYEVDTAADGEEALELLEEERPDLillDLMLPGMD-----GLEVCRRLRARP--SD 73

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 15240235  95 IPVIMMSRQDEVPVVVKCLKLGAADYLVKPLRTNELL 131
Cdd:COG0745  74 IPIIMLTARDDEEDRVRGLEAGADDYLTKPFDPEELL 110

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

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  17 SRVRILLCDnDSTSLGEVFT-LLSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYITRDKdlRRI 95
Cdd:COG2204   1 SMARILVVD-DDPDIRRLLKeLLERAGYEVETAASGEEALALLREEPPDL--VLLDLRMPGMDGLELLRELRALD--PDL 75

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
gi 15240235  96 PVIMMSRQDEVPVVVKCLKLGAADYLVKPLRTNELLNLWTHMWRRRRM 143
Cdd:COG2204  76 PVILLTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRL 123

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

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  20 RILLCDNDSTSLGEVFTLLSECSY--QVTAVKSARQVIDALNAEgpDIDIILAEIDLPMAKGMKMLRYITRDKdlRRIPV 97
Cdd:COG4565   5 RVLIVEDDPMVAELLRRYLERLPGfeVVGVASSGEEALALLAEH--RPDLILLDIYLPDGDGLELLRELRARG--PDVDV 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 15240235  98 IMMSRQDEVPVVVKCLKLGAADYLVKPLRTNELLNLWTHMWRRRRMLGLAEKNML 152
Cdd:COG4565  81 IVITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRRLLREDQEEDL 135

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  22 LLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDI---DIILAEIDlpmakGMKMLRYItRdKDLRRIPVI 98
Cdd:cd17574   1 LVVEDDEEIAELLSDYLEKEGYEVDTAADGEEALELAREEQPDLiilDVMLPGMD-----GFEVCRRL-R-EKGSDIPII 73

                        90       100
                ....*....|....*....|....*.
gi 15240235  99 MMSRQDEVPVVVKCLKLGAADYLVKP 124
Cdd:cd17574  74 MLTAKDEEEDKVLGLELGADDYITKP 99

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  19 VRILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYITRDKDlrRIPVI 98
Cdd:cd17555   1 ATILVIDDDEVVRESIAAYLEDSGFQVLQAADGRQGLELFRSEQPDL--VLCDLRMPEMDGLEVLKQITKESP--DTPVI 76

                        90       100       110
                ....*....|....*....|....*....|.
gi 15240235  99 MMS----RQDevpvVVKCLKLGAADYLVKPL 125
Cdd:cd17555  77 VVSgagvMSD----AVEALRLGAWDYLTKPI 103

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYITRDKDLRRIPVIMM 100
Cdd:cd19920   1 ILIVDDVPDNLRLLSELLRAAGYRVLVATDGQQALQRAQAEPPDL--ILLDVMMPGMDGFEVCRRLKADPATRHIPVIFL 78

                        90       100
                ....*....|....*....|....
gi 15240235 101 SRQDEVPVVVKCLKLGAADYLVKP 124
Cdd:cd19920  79 TALTDTEDKVKGFELGAVDYITKP 102

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDsTSLGE-VFTLLSECSYQVTAVKSARQVIDALNAEGPDIdIILaEIDLPMAKGMKMLRYITRDKdlRRIPVIM 99
Cdd:cd17624   1 ILLVEDD-ALLGDgLKTGLRKAGYAVDWVRTGAEAEAALASGPYDL-VIL-DLGLPDGDGLDLLRRWRRQG--QSLPVLI 75

                        90       100       110
                ....*....|....*....|....*....|..
gi 15240235 100 MSRQDEVPVVVKCLKLGAADYLVKPLRTNELL 131
Cdd:cd17624  76 LTARDGVDDRVAGLDAGADDYLVKPFALEELL 107

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEgpDIDIILAEIDLPMAKGMKMLRYITRDKDLrriPVIMM 100
Cdd:cd17594   2 VLVVDDDAAMRHLLILYLRERGFDVTAAADGAEEARLMLHR--RVDLVLLDLRLGQESGLDLLRTIRARSDV---PIIII 76

                        90       100       110
                ....*....|....*....|....*....|...
gi 15240235 101 S--RQDEVPVVVKcLKLGAADYLVKPLRTNELL 131
Cdd:cd17594  77 SgdRRDEIDRVVG-LELGADDYLAKPFGLRELL 108

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  34 VFTLLSEcSYQVTAVKSARqviDALN-AEGPDIDIILAEIDLPMAKGMKMLRYITRDKDLRRIPVIMMS-RQDEVPVVVK 111
Cdd:cd19937  14 KYNLEKE-GYEVVTAYDGE---EALKrAKDEKPDLIILDLMLPGIDGLEVCRILRSDPKTSSIPIIMLTaKGEEFDKVLG 89

                        90       100
                ....*....|....*....|
gi 15240235 112 cLKLGAADYLVKPLRTNELL 131
Cdd:cd19937  90 -LELGADDYITKPFSPRELL 108

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  19 VRILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEgPDIDIILAEIDLPMAKGMKMLRYITRDKDLRRIPVI 98
Cdd:cd17544   1 IKVLVVDDSATSRNHLRALLRRHNFQVLEAANGQEALEVLEQH-PDIKLVITDYNMPEMDGFELVREIRKKYSRDQLAII 79

                        90       100       110
                ....*....|....*....|....*....|..
gi 15240235  99 MMSRQDEVPVVVKCLKLGAADYLVKPLRTNEL 130
Cdd:cd17544  80 GISASGDNALSARFIKAGANDFLTKPFLPEEF 111

type-a response regulator protein; Provisional

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235   17 SRVRILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVI--------DALNAEGP----------DIDIILAEIDLPMAK 78
Cdd:PLN03029   7 SQFHVLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALkflglhedDRSNPDTPsvspnshqevEVNLIITDYCMPGMT 86

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15240235   79 GMKMLRYITRDKDLRRIPVIMMSRQDEVPVVVKCLKLGAADYLVKPLRTNELLNLWTHMWRRR 141
Cdd:PLN03029  87 GYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQLSDLNRLKPHMMKTK 149

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDS---TSLGEVftlLSECSYQVTAVKSARQVIDALNAEGPDI---DIILAEIDlpmakGMKMLRYITRDKDLrr 94
Cdd:cd17550   1 ILIVDDEEdirESLSGI---LEDEGYEVDTAADGEEALKLIKERRPDLvllDIWLPDMD-----GLELLKEIKEKYPD-- 70

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 15240235  95 IPVIMMSRQDEVPVVVKCLKLGAADYLVKPLRTNELLNL 133
Cdd:cd17550  71 LPVIMISGHGTIETAVKATKLGAYDFIEKPLSLDRLLLT 109

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  20 RILLCDNDsTSLGEVFTL-LSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYITRDKDlrrIPVI 98
Cdd:cd17626   2 RILVVDDD-AALAEMIGIvLRGEGFDPAFCGDGTQALAAFREVRPDL--VLLDLMLPGIDGIEVCRQIRAESG---VPIV 75

                        90       100       110
                ....*....|....*....|....*....|...
gi 15240235  99 MMSRQDEVPVVVKCLKLGAADYLVKPLRTNELL 131
Cdd:cd17626  76 MLTAKSDTVDVVLGLESGADDYVAKPFKPKELV 108

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDI---DIILAEIDlpmakGMKMLRYITRDKDLRRIPV 97
Cdd:cd17598   1 ILIVEDSPTQAEQLKHILEEQGYKVQVARNGREALAMLAEHRPTLvisDIVMPEMD-----GYELCRKIKSDPDLKDIPV 75

                        90       100       110
                ....*....|....*....|....*....|....
gi 15240235  98 IMMSRQDEVPVVVKCLKLGAADYLVKPLRTNELL 131
Cdd:cd17598  76 ILLTTLSDPRDVIRGLECGADNFITKPYDEKYLL 109

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEgpDIDIILAEIDLPmakGM------KMLRyiTRDKDLRR 94
Cdd:cd17546   1 VLVVDDNPVNRKVLKKLLEKLGYEVDVAENGQEALELLKEE--PFDLVLMDLQMP---VMdgleatRRIR--ELEGGGRR 73

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 15240235  95 IPVIMMS---RQDEVpvvVKCLKLGAADYLVKPLRTNELLNL 133
Cdd:cd17546  74 TPIIALTanaLEEDR---EKCLEAGMDDYLSKPVKLDQLKEV 112

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYITRDKDLrrIPVIMM 100
Cdd:cd17627   1 ILVVDDDRAVRESLRRSLRFEGYEVETAVDGAEALRVISGNRPDA--VVLDVMMPRLDGLEVCRRLRAAGND--LPILVL 76

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 15240235 101 SRQDEVPVVVKCLKLGAADYLVKPLRTNELLNLWTHMWRR 140
Cdd:cd17627  77 TARDSVSDRVAGLDAGADDYLVKPFALEELLARVRALLRR 116

acetoacetate metabolism transcriptional regulator AtoC;

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235   16 RSRVRILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYItRDKDlRRI 95
Cdd:PRK11361   2 TAINRILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPDV--VLMDIRMPEMDGIKALKEM-RSHE-TRT 77

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 15240235   96 PVIMMSRQDEVPVVVKCLKLGAADYLVKPLRTNEL 130
Cdd:PRK11361  78 PVILMTAYAEVETAVEALRCGAFDYVIKPFDLDEL 112

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  38 LSECSYQVTAvksARQVIDALN-AEGPDIDIILAEIDLPMAKGMKMLRYITRDKDlrRIPVIMMSRQDEVPVVVKCLKLG 116
Cdd:cd19935  18 LTEEGYAVDV---AYDGEDGLHlALTNEYDLIILDVMLPGLDGLEVLRRLRAAGK--QTPVLMLTARDSVEDRVKGLDLG 92

                ....*...
gi 15240235 117 AADYLVKP 124
Cdd:cd19935  93 ADDYLVKP 100

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  50 SARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYITRDkdLRRIPVIMMSRQDEVPVVVKCLKLGAADYLVKPLRTNE 129
Cdd:cd17535  32 DGEEALALLRELRPDV--VLMDLSMPGMDGIEALRRLRRR--YPDLKVIVLTAHDDPEYVLRALKAGAAGYLLKDSSPEE 107

                ...
gi 15240235 130 LLN 132
Cdd:cd17535 108 LIE 110

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  21 ILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIDIIlaEIDLPMAKGMKMLRYITRDKDLrriPVIMM 100
Cdd:cd19936   1 IALVDDDRNILTSVSMALEAEGFSVETYTDGASALDGLNARPPDLAIL--DIKMPRMDGMELLQRLRQKSTL---PVIFL 75

                        90       100
                ....*....|....*....|....*
gi 15240235 101 -SRQDEVPVVVKcLKLGAADYLVKP 124
Cdd:cd19936  76 tSKDDEIDEVFG-LRMGADDYITKP 99

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  38 LSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYItrDKDLRRIPVIMMSRQDEVPVVVKCLKLGA 117
Cdd:cd19919  20 LAGAGLTVTSFENAQEALAALASSQPDV--LISDIRMPGMDGLALLAQI--KQRHPDLPVIIMTAHSDLDSAVSAYQGGA 95

                        90
                ....*....|....*.
gi 15240235 118 ADYLVKPLRTNELLNL 133
Cdd:cd19919  96 FEYLPKPFDIDEAVAL 111

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.

                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15240235  20 RILLCDNDSTSLGEVFTLLSECSYQVTAVKSARQVIDALNAEGPDIdiILAEIDLPMAKGMKMLRYITRDKDLRRIPVI- 98
Cdd:cd17548   1 KILIVEDNPLNMKLARDLLESAGYEVLEAADGEEALEIARKEKPDL--ILMDIQLPGMDGLEATRLLKEDPATRDIPVIa 78

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 15240235  99 ----MMSRQDEvpvvvKCLKLGAADYLVKPLRTNELL 131
Cdd:cd17548  79 ltayAMKGDRE-----KILEAGCDGYISKPIDTREFL 110