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

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   1 MHILATDDEALSLDSLTVTLQKaFPHAE-VHSFQQPRKALDFVrflcqrQNTSLDFAFLDVEMPGMTGIELAAELKKLCP 79
Cdd:COG3279    2 MKILIVDDEPLARERLERLLEK-YPDLEvVGEASNGEEALELL------EEHKPDLVFLDIQMPGLDGFELARQLRELDP 74

                         90       100       110
                 ....*....|....*....|....*....|.
gi 503144367  80 DVGIFFVTGFADYAYEAYRVHARGYILKPVT 110
Cdd:COG3279   75 PPPIIFTTAYDEYALEAFEVNAVDYLLKPID 105

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

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   1 MHILATDDEALSLDSLTVTLQKaFPHAE-VHSFQQPRKALDFVrflcqrQNTSLDFAFLDVEMPGMTGIELAAELKKLCP 79
Cdd:COG3279    2 MKILIVDDEPLARERLERLLEK-YPDLEvVGEASNGEEALELL------EEHKPDLVFLDIQMPGLDGFELARQLRELDP 74

                         90       100       110
                 ....*....|....*....|....*....|.
gi 503144367  80 DVGIFFVTGFADYAYEAYRVHARGYILKPVT 110
Cdd:COG3279   75 PPPIIFTTAYDEYALEAFEVNAVDYLLKPID 105

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.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367    3 ILATDDEALSLDSLTVTLQKAfpHAEVHSFQQPRKALDFVRFLcqrqntSLDFAFLDVEMPGMTGIELAAELKKLCPDVG 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKE--GYVVAEADDGKEALELLKEE------RPDLILLDINMPGMDGLELLKRIRRRDPTTP 72

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 503144367   83 IFFVTGFADYAY--EAYRVHARGYILKPVT-GELIE 115
Cdd:pfam00072  73 VIILTAHGDEDDavEALEAGADDFLSKPFDpDELLA 108

two-component system response regulator BtsR;

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 503144367  54 DFAFLDVEMPGMTGIELAAELKklcPDV--GIFFVTGFADYAYEAYRVHARGYILKPV 109
Cdd:PRK11697  49 DVVFLDIQMPRISGLELVGMLD---PEHmpYIVFVTAFDEYAIKAFEEHAFDYLLKPI 103

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

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   1 MHILATDDEALSLDSLTVTLQKaFPHAE-VHSFQQPRKALDFVrflcqrQNTSLDFAFLDVEMPGMTGIELAAELKKLCP 79
Cdd:COG3279    2 MKILIVDDEPLARERLERLLEK-YPDLEvVGEASNGEEALELL------EEHKPDLVFLDIQMPGLDGFELARQLRELDP 74

                         90       100       110
                 ....*....|....*....|....*....|.
gi 503144367  80 DVGIFFVTGFADYAYEAYRVHARGYILKPVT 110
Cdd:COG3279   75 PPPIIFTTAYDEYALEAFEVNAVDYLLKPID 105

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   7 DDEALSLDSLTVTLQKAFPHAE-VHSFQQPRKALDFVrflcqrQNTSLDFAFLDVEMPGMTGIELAAELKKLCPDVGIFF 85
Cdd:cd17536    5 DDEPLIREGLKKLIDWEELGFEvVGEAENGEEALELI------EEHKPDIVITDIRMPGMDGLELIEKIRELYPDIKIII 78

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 503144367  86 VTGFAD--YAYEAYRVHARGYILKPVTGELIEEEMAHLA 122
Cdd:cd17536   79 LSGYDDfeYAQKAIRLGVVDYLLKPVDEEELEEALEKAK 117

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   7 DDEALSLDSLTVTLQKAFphAEVHSFQQPRKALDFVrflcqrQNTSLDFAFLDVEMPGMTGIELAAELKKLCPDVGIFFV 86
Cdd:cd00156    4 DDDPAIRELLKSLLEREG--YEVDTAADGEEALELL------REERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVL 75

                         90       100
                 ....*....|....*....|....
gi 503144367  87 TGFADYAY--EAYRVHARGYILKP 108
Cdd:cd00156   76 TAKADEEDavRALELGADDYLVKP 99

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.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367    3 ILATDDEALSLDSLTVTLQKAfpHAEVHSFQQPRKALDFVRFLcqrqntSLDFAFLDVEMPGMTGIELAAELKKLCPDVG 82
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEKE--GYVVAEADDGKEALELLKEE------RPDLILLDINMPGMDGLELLKRIRRRDPTTP 72

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 503144367   83 IFFVTGFADYAY--EAYRVHARGYILKPVT-GELIE 115
Cdd:pfam00072  73 VIILTAHGDEDDavEALEAGADDFLSKPFDpDELLA 108

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 503144367   1 MHILATDDEALSLDSLTVTLQKAfpHAEVHSFQQPRKALDFVRflcqrqNTSLDFAFLDVEMPGMTGIELAAELKKLCPD 80
Cdd:COG2204    3 ARILVVDDDPDIRRLLKELLERA--GYEVETAASGEEALALLR------EEPPDLVLLDLRMPGMDGLELLRELRALDPD 74

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 503144367  81 VGIFFVTGFAD--YAYEAYRVHARGYILKPVTGELIEE 116
Cdd:COG2204   75 LPVILLTGYGDveTAVEAIKAGAFDYLTKPFDLEELLA 112

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 503144367   3 ILATDDEALSLDSLTVTLQKAFPHAEVHSFQQPRKALDFVRflcqrqNTSLDFAFLDVEMPGMTGIELAAELKKLCPDVG 82
Cdd:cd17535    1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLR------ELRPDVVLMDLSMPGMDGIEALRRLRRRYPDLK 74

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 503144367  83 IFFVTGFAD--YAYEAYRVHARGYILKPVTGELIEE 116
Cdd:cd17535   75 VIVLTAHDDpeYVLRALKAGAAGYLLKDSSPEELIE 110

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 503144367   1 MHILATDDEALSLDSLTVTLQKAfpHAEVHSFQQPRKALDFVrflcqrQNTSLDFAFLDVEMPGMTGIELAAELKKL--C 78
Cdd:COG3706    2 ARILVVDDDPTNRKLLRRLLEAA--GYEVVEAADGEEALELL------QEHRPDLILLDLEMPDMDGLELCRRLRADprT 73

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 503144367  79 PDVGIFFVTGFADYAY--EAYRVHARGYILKPVTGE 112
Cdd:COG3706   74 ADIPIIFLTALDDEEDraRALEAGADDYLTKPFDPE 109

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   3 ILATDDEALSLDSLTVTLQKAFPHaeVHSFQQPRKALDFVRflcqrQNTSLDFAFLDVEMPGMTGIELAAELKKLCPDVG 82
Cdd:cd18160    2 ILLADDEPSVRKFIVTTLKKAGYA--VTEAESGAEALEKLQ-----QGKDIDIVVTDIVMPEMDGIELAREARKIDPDVK 74

                         90
                 ....*....|...
gi 503144367  83 IFFVTGFADYAYE 95
Cdd:cd18160   75 ILFISGGAAAAPE 87

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.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 503144367  47 QRQNTSLDFAFLDVEMPGMTGIELAAELKKLCPDVGIFFVTGFADYAYEA--YRVHARGYILKPVTGELIEEE 117
Cdd:cd17533   48 ERGKNGIYFLDIDIKMEEKNGLEVAQKIRKYDPYAIIIFVTTHSEFAPLTfeYKVAALDFILKPLKLEEFKKR 120

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 503144367   3 ILATDDEALSLDSLTVTLQKAFPhaEVHSFQQPRKALDFVRflcqrqNTSLDFAFLDVEMPGMTGIELAAELKKL---CP 79
Cdd:cd17546    1 VLVVDDNPVNRKVLKKLLEKLGY--EVDVAENGQEALELLK------EEPFDLVLMDLQMPVMDGLEATRRIRELeggGR 72

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 503144367  80 DVGIFFVTGFA--DYAYEAYRVHARGYILKPVTGELIEE 116
Cdd:cd17546   73 RTPIIALTANAleEDREKCLEAGMDDYLSKPVKLDQLKE 111

two-component system response regulator BtsR;

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 503144367  54 DFAFLDVEMPGMTGIELAAELKklcPDV--GIFFVTGFADYAYEAYRVHARGYILKPV 109
Cdd:PRK11697  49 DVVFLDIQMPRISGLELVGMLD---PEHmpYIVFVTAFDEYAIKAFEEHAFDYLLKPI 103

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   3 ILATDDEALSLDSLTVTLQKaFPHAEVHSFQQPRKALDFVRflcqrqNTSLDFAFLDVEMPG-MTGIELAAELKKLCpDV 81
Cdd:cd17534    3 ILIVEDEAIIALDLKEILES-LGYEVVGIADSGEEAIELAE------ENKPDLILMDINLKGdMDGIEAAREIREKF-DI 74

                         90       100       110
                 ....*....|....*....|....*....|.
gi 503144367  82 GIFFVTGFADYAY--EAYRVHARGYILKPVT 110
Cdd:cd17534   75 PVIFLTAYSDEETleRAKETNPYGYLVKPFN 105

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   3 ILATDDEALSLDSLTVTLQKA-FphaEVHSFQQPRKALDFVrflcqrqntSLDFA---FLDVEMPGMTGIELAAELKKLC 78
Cdd:cd17549    1 VLLVDDDADVREALQQTLELAgF---RVRAFADAEEALAAL---------SPDFPgvvISDIRMPGMDGLELLAQIRELD 68

                         90       100       110
                 ....*....|....*....|....*....|...
gi 503144367  79 PDVGIFFVTGFAD--YAYEAYRVHARGYILKPV 109
Cdd:cd17549   69 PDLPVILITGHGDvpMAVEAMRAGAYDFLEKPF 101

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   7 DDEALSLDSLTVTLQKAFPHAEVHSfqqprKALDFVRFLCQRQNTSLdfaFLDVEMPGMTGIELAAELKKLCPDVGIFFV 86
Cdd:cd17537    7 DDDEAVRDSLAFLLRSVGLAVKTFT-----SASAFLAAAPPDQPGCL---VLDVRMPGMSGLELQDELLARGSNIPIIFI 78

                         90       100       110
                 ....*....|....*....|....*....|
gi 503144367  87 TGFAD--YAYEAYRVHARGYILKPVTGELI 114
Cdd:cd17537   79 TGHGDvpMAVEAMKAGAVDFLEKPFRDQVL 108

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   3 ILATDDEALSLDSLTVTLQKAfpHAEVHSFQQPRKALDFVrflcqrQNTSLDFAFLDVEMPGMTGIELAAELKKLCPDVG 82
Cdd:cd17580    1 ILVVDDNEDAAEMLALLLELE--GAEVTTAHSGEEALEAA------QRFRPDVILSDIGMPGMDGYELARRLRELPWLAN 72

                         90
                 ....*....|
gi 503144367  83 IFFV--TGFA 90
Cdd:cd17580   73 TPAIalTGYG 82

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

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   7 DDEALSLDSLTVTLQKAfpHAEVHSFQQprkALDFVRFLCQRQNTSLdfaFLDVEMPGMTGIELAAELKKLCPDVGIFFV 86
Cdd:COG4566    6 DDDEAVRDSLAFLLESA--GLRVETFAS---AEAFLAALDPDRPGCL---LLDVRMPGMSGLELQEELAARGSPLPVIFL 77

                         90       100       110
                 ....*....|....*....|....*....|..
gi 503144367  87 TGFAD--YAYEAYRVHARGYILKPVTGE-LIE 115
Cdd:COG4566   78 TGHGDvpMAVRAMKAGAVDFLEKPFDDQaLLD 109

two component system response regulator;

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   3 ILATDDEALSLDSLTVTLQkAFPHAEVhsFQQPRKALDfVRFLCQRqnTSLDFAFLDVEMPGMTGIELAAELKKLCPDVG 82
Cdd:PRK15369   6 ILLVDDHELIINGIKNMLA-PYPRYKI--VGQVDNGLE-VYNACRQ--LEPDIVILDLGLPGMNGLDVIPQLHQRWPAMN 79

                         90       100
                 ....*....|....*....|....*..
gi 503144367  83 IFFVTGFAD--YAYEAYRVHARGYILK 107
Cdd:PRK15369  80 ILVLTARQEehMASRTLAAGALGYVLK 106

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   2 HILATDDEALSLDSLTVTLQKAFPhaevhsfqQPRKALDFVRFLCQRQNTSLDFAFLDVEMPGMTGIELAAELKKLcP-- 79
Cdd:cd17562    2 KILAVDDSASIRQMVSFTLRGAGY--------EVVEAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKL-Pay 72

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 503144367  80 -DVGIFFVTGFADYAY--EAYRVHARGYILKP-VTGELIE 115
Cdd:cd17562   73 kFTPILMLTTESSDEKkqEGKAAGATGWLVKPfDPEQLLE 112

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   3 ILATDDEALSLDSLTVTLQKAFphaEVHSFQQPRKALDFVR------FLCqrqntsldfaflDVEMPGMTGIELAAELKK 76
Cdd:cd17596    3 ILVVDDEVRSLEALRRTLEEDF---DVLTAASAEEALAILEeewvqvILC------------DQRMPGTTGVEFLKEVRE 67

                         90
                 ....*....|....*
gi 503144367  77 LCPDVGIFFVTGFAD 91
Cdd:cd17596   68 RWPEVVRIIISGYTD 82

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 503144367   7 DDEalslDSLTVTLQKAFPHA--EVHSFQQPRKALDfvrflcQRQNTSLDFAFLDVEMPGMTGIELAAELKKLCPDVGIF 84
Cdd:cd19919    7 DDD----SSIRWVLERALAGAglTVTSFENAQEALA------ALASSQPDVLISDIRMPGMDGLALLAQIKQRHPDLPVI 76

                         90       100
                 ....*....|....*....|....*.
gi 503144367  85 FVTGFADY--AYEAYRVHARGYILKP 108
Cdd:cd19919   77 IMTAHSDLdsAVSAYQGGAFEYLPKP 102

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367  27 AEVHSFQQPRKALDfvrflcqrqNTSLDFAFLDVEMPGMTGIELAAELKKLCPDVGIFFVTGFADYAY--EAYRVHARGY 104
Cdd:cd19925   30 GTAGTGEEALKLLK---------ERQPDLILLDIYLPDGNGLDLLRELRAAGHDVDVIVVTAANDVETvrEALRLGVVDY 100

                 ....*...
gi 503144367 105 ILKPVTGE 112
Cdd:cd19925  101 LIKPFTFE 108

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

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   1 MHILATDDEALSLDSLTVTLQKAfPHAEVHSFQQPRKALDFVRflcqrqNTSLDFAFLDVEMPGMTGIELAAEL--KKLC 78
Cdd:COG3707    4 LRVLVVDDEPLRRADLREGLREA-GYEVVAEAADGEDAVELVR------ELKPDLVIVDIDMPDRDGLEAARQIseERPA 76

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 503144367  79 PDVgifFVTGFADYAY--EAYRVHARGYILKPVTGELI 114
Cdd:COG3707   77 PVI---LLTAYSDPELieRALEAGVSAYLVKPLDPEDL 111

sigma-54-dependent response regulator transcription factor ZraR;

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367  45 LCQRQNTSLDFAFLDVEMPGMTGIELAAELKKLCPDVGIFFVTGFA--DYAYEAYRVHARGYILKPVT----GELIEEEM 118
Cdd:PRK10365  42 LEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPAIPVLIMTAYSsvETAVEALKTGALDYLIKPLDfdnlQATLEKAL 121

                 ..
gi 503144367 119 AH 120
Cdd:PRK10365 122 AH 123

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503144367   3 ILATDDEALSLDSLTVTLQKAfpHAEVHSFQQPRKALDFVRflcQRQNtSLDFAFLDVEMPGMTGIELAAELKKLCpDVG 82
Cdd:cd17584    1 VLVVDDDPTCLAILKRMLLRC--GYQVTTCTDAEEALSMLR---ENKD-EFDLVITDVHMPDMDGFEFLELIRLEM-DLP 73

                         90       100       110
                 ....*....|....*....|....*....|....
gi 503144367  83 IFFVTgfADYA-YEAYRVHARG---YILKPVTGE 112
Cdd:cd17584   74 VIMMS--ADGStSTVMKGLAHGacdYLLKPVSIE 105

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.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 503144367  50 NTSLDFAFLDVEMPG-MTGIELAAELKKLCPDVGIFFVTGFADYAYEAYRvHARGY--ILKPV 109
Cdd:cd18161   41 GPDIDLLVTDVIMPGgMNGSQLAEEARRRRPDLKVLLTSGYAENAIEGGD-LAPGVdvLSKPF 102