1P2F,1KGS,1GXP,1QQI,2OQR,1YS6,2GWR,1ODD,2JZY,2MLK,4IXA,2HQN,2M1B,2PMU,3RJP,4B09,2K4J


Conserved Protein Domain Family
trans_reg_C

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cd00383: trans_reg_C 
Click on image for an interactive view with Cn3D
DNA-binding effector domain of two-component system response regulators
Bacteria and some eukaryotes use two-component signal transduction systems to detect and respond to changes in the environment. The systems consists of a sensor histidine kinase and a response regulator. The former autophosphorylates a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. This C-terminal effector domain belongs to the winged helix-turn-helix family of transcriptional regulators and contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunit of RNA polymerase.
Statistics
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PSSM-Id: 294013
View PSSM: cd00383
Aligned: 523 rows
Threshold Bit Score: 53.2517
Threshold Setting Gi: 24114749
Created: 6-Mar-2002
Updated: 6-Nov-2015
Structure
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Program:
Drawing:
Aligned Rows:
 
DNA binding
Conserved site includes 9 residues -Click on image for an interactive view with Cn3D
Feature 1:DNA binding site [nucleic acid binding site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                #                  ##                 #  #       ##  
1P2F_A    128 LKIDAt----gFTVFLk--gKRI--HLPKKEFEILLFLAENAGKVVTREKLLETFWEdp--vSPRVVDTVIKRIRKAIEd 197  Thermotoga maritima
1GXP_A     14 LSLDPt----sHRVMAg--eEPL--EMGPTEFKLLHFFMTHPERVYSREQLLNHVWGtnvyvEDRTVDVHIRRLRKALEp 85   Escherichia coli
NP_766934  55 FRLDPs----qRRVERd--gSPL--QLSGRAFDILLALVRQAGNVVSKTELMATTWPga-avEENSLRVHIAALRKALGd 125  Bradyrhizobium ja...
YP_144859 128 LRLYP------RRMEAfrgeRRL--ALSPKAFLLLKAFLEAPEEVLSKEALMRKVWGee--vEPATLEVHLSALRKALGe 197  Thermus thermophilus
NP_771759  14 FRLTAs-----ERLLTk---DGVpvDLGARAYEILTALVSTPNEVISKKDLLSLVWPnv-tvEEGSLRGQMASLRKMLGd 84   Bradyrhizobium
NP_766939  19 WLIDCq----rRELRY----NNVavPIGSRAFEILEKLVGSAGLLVTKDDLIGSVWSgl-tvEDNTLQVHISAVRKALGe 89   Bradyrhizobium
YP_888147   7 FVLDTg----rFELRRg---DEVi-RVEPQVFDVLTQLIVNHERVVTKVELFDTVWGgr-fvGEAALTSRIKAARRALGd 77   Mycobacterium sme...
NP_766935  31 WEIDLv----rRELRSa---GELv-PLGGRAFEILAELVQAEGQLVTKNDLTERVWRgv-fvEESALRVHIAAIRKALGp 101  Bradyrhizobium di...
NP_767835  12 LSFGPftviphERLVTr---DGValPLGTKAFDTLIALMSRPNEVVSKWDLMALVWPgm-avEEANLRFHVAALRKVLGd 87   Bradyrhizobium
NP_767857  10 LDGDL------RELTC----AGVavPLQPQVFDLLLYLVAQRARVVSKDDLISQIWSdr-ivSDSALNSRINAARKALGd 78   Bradyrhizobium
Feature 1              #    #   
1P2F_A    198 dpnrprYIKTIWGVGYXF 215  Thermotoga maritima
1GXP_A     86 gg-hdrMVQTVRGTGYRF 102  Escherichia coli
NP_766934 126 gndgvrYLSTVSGQGYCF 143  Bradyrhizobium japonicum USDA 110
YP_144859 198 p----sPIQTVRGYGYRL 211  Thermus thermophilus
NP_771759  85 gkdgarYITTVAGRGYCF 102  Bradyrhizobium
NP_766939  90 d---rnLLKTVSGRGYTL 104  Bradyrhizobium
YP_888147  78 dgesqrYIRTIRGRGYQF 95   Mycobacterium smegmatis
NP_766935 102 d---rdMLSTTVGRGYRL 116  Bradyrhizobium diazoefficiens
NP_767835  88 gkdgarYITTLSGRGYCF 105  Bradyrhizobium
NP_767857  79 dgatqrLIKTIPRKGFRF 96   Bradyrhizobium

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