Conserved Protein Domain Family
PBP2_CrgA_like_5

?
cd08474: PBP2_CrgA_like_5 
The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold.
This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 5. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene and activates the expression of the mdaB gene which coding for an NADPH-quinone reductase and that its action is increased by MBL (alpha-methylene-gamma-butyrolactone), an inducer of NADPH-quinone oxidoreductase. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.
Statistics
?
PSSM-Id: 176163
View PSSM: cd08474
Aligned: 96 rows
Threshold Bit Score: 263.168
Threshold Setting Gi: 15596525
Created: 14-Oct-2009
Updated: 2-Oct-2020
Structure
?
Aligned Rows:
 
putativeputative
Feature 1:putative dimerization interface [polypeptide binding site]
Evidence:
  • Comment:based on sequence similarity to Neisseria meningitidis CrgA

Sequence Alignment
?
Format: Row Display: Color Bits: Type Selection:
Feature 1                     ##   ## ##  #   # #######                                          
YP_001477411  92 PAGTLRLNasgLAAIHYLAPLLAPFNAHYPdIVVDLSVedrlVDMVAAgfDAGVRLHerlekdMVAVALGGeQRMCVVAS 171 Serratia protea...
YP_001314375  91 PSGRLRLNmapGAARILLQPLILEYSRRYPeVDIEVVTenalVDVIGKgfDAGIRLTdsispdMVAVPIIPkMRSVVVGS 170 Sinorhizobium m...
YP_349008     92 PSGNLRITagrQACELVLLPIASEFLKIYPdIRLEVVEsdalLDIVASgfDAGVRFGnrleadMVSMPIGPnLRSVVVGA 171 Pseudomonas flu...
NP_384396     92 PAGKLRITaprFAADLILAPRLGDFLGRYPdTVLEIANedgfTNIVEEgyDAGIRLGesleadMVAVKVGPeLKSAVVAA 171 Sinorhizobium m...
NP_104270     92 PFGTVRINvpnSIAPFVLHDVMGPLLKQNPgLHLDIVAtdrlVDIVEGgfDAGIRFGerlmqdMIAVHIKPtLRFSVVGS 171 Mesorhizobium l...
YP_002154088  93 PSGTLRLTaseTVSMLLVQKIIPEFLNRYPeMRVDLVAepafVDIVAEgfDAGFRLGeavpqdMVAVHFGGpSRMIPVAS 172 Burkholderia ce...
NP_308336     99 PSGTVRINasqHAIDKCLLPKLAVFKQRYPdIQLELINesrfVDIIEErfDAGVRLGpevsqgMVAVRITPdMEMAIVGT 178 Escherichia col...
ACV76170      94 PTGTIRITstdDALAYVIRPKIKGFLQKYPgVKIELVSdlklVDIFTEkfDAAIRLGenvtkeMASVPLTPdIRFTVVGS 173 Zymomonas mobil...
YP_001141441  96 PQGRVRINtprIAADMIFLPQLQKFCHQYPdVQLELATndgfVDIISQgfDAGVRIRsdvqqdMSAVRLTAdFHSAVYGS 175 Aeromonas salmo...
YP_001345376  90 PMGTVRINasqVAIEMAVLPKLAPILSRFPhIQIELHSenrfVDIVGEgfDMGVRIGddvakdMVAVKVSPpLTTAIVAS 169 Actinobacillus ...
Feature 1                           #                              #####      ##  #              
YP_001477411 172 PAYLARYGTPqtPDALRQHRCLNTrwptngsIYRWEFerggekleiaveGPLIVDEPqvLVRAAADGlGIAYLFes-qvA 250 Serratia protea...
YP_001314375 171 PRYFDGRQKPvvPGDLSQHICIQMrmt-sgrFYRWEFekrgetqsiavtGHLTFDGSdlILEAALAGfGLAFLGeh-alA 248 Sinorhizobium m...
YP_349008    172 PGFFERHPAPqkPEDLHALPCIRHrfp-sgsMYRWEFerggieqeieinGPLTLGDVslMIGPALQGlGLAYVFen-maR 249 Pseudomonas flu...
NP_384396    172 PSYFERFQRPrhPRDLAGHRCIRRrfs-ngtIYRWEFekegeeltvsvnGPLILGEDrpIIEAATGGaGLAYLFep-rvS 249 Sinorhizobium m...
NP_104270    172 PDYLAGRKTPvmPADLREHACIRYryp-sgaIYNWQFekngeavdvevnGPVTLDDQelMVEAALQGcGLAYVWdn-rvM 249 Mesorhizobium l...
YP_002154088 173 KTYLAARKPPrtPVDLAEHQCICSrtp-ngrPYKWEFkrrghavsidvpGSLVLNRTelMLEAALQGlGVAFVPeq-maR 250 Burkholderia ce...
NP_308336    179 PEHFRRYGFPqtPADLKAHPCIAYqfa-dgsVYQWELnqddkkithqpeGQWAFSDSymEAEAARLGlGLAYVPve-lvA 256 Escherichia col...
ACV76170     174 PEYFQNKPIPetPQDLLNHQCITIrlpthggIYAWEFekagrdikirvdGPLVFNSIfpIRNACLDGlGLAHMPei-maK 252 Zymomonas mobil...
YP_001141441 176 PAYFERHAIPltPADLQHHLCIGRreitggsLYRWEFekdgrqiavpvsGPVTVDNVsmMTRLALDGiGLVYTAqspehD 255 Aeromonas salmo...
YP_001345376 170 PRYLADKPIPrhIKDLDNHRLIALrlaadrrPIAWDFrikgkpvsytpkGQLLLNSN--PLPAIKHHlGIGFMPyf-mvE 246 Actinobacillus ...
Feature 1                                                   
YP_001477411 251 EALNDGRLLPLLaawtppFPGFYLYYPAnrqmprpLRAFIDFA 293 Serratia proteamaculans 568
YP_001314375 249 PHIASGNLIPVLedwsphYAGLSLYFAQrrhmpakLRVLIELI 291 Sinorhizobium medicae WSM419
YP_349008    250 EHLASGRLVQVLadwcpyYPGLHLYYPSrrhvpapLKAFIDFA 292 Pseudomonas fluorescens PfO-1
NP_384396    250 GYVAEGKLVRVLedwcapYAGPFLYYPTrrlmrpaLRAFIDFF 292 Sinorhizobium meliloti 1021
NP_104270    250 RHLASGALIRCLddwcapDDGLFLYYPSrrylsagLRALIDML 292 Mesorhizobium loti MAFF303099
YP_002154088 251 PYLDNGSLSALLsewcptYPGLYLYYPGhrqvpvgLRAFVGVL 293 Burkholderia cenocepacia J2315
NP_308336    257 DDLEHGKLIRVLqryslrMEGLFLYYPHrnv-spaLRMVIDTL 298 Escherichia coli O157:H7 str. Sakai
ACV76170     253 KYIEEGRLIPVLedwcpyWSGYHLCFPHhyenirpFSLFLEEM 295 Zymomonas mobilis subsp. mobilis NCIB 11163
YP_001141441 256 DLVTTGRLIRVLadgsitYPGFFLYYPGhrqlpaaLKAVIDCF 298 Aeromonas salmonicida subsp. salmonicida A449
YP_001345376 247 KELKSGELVEVLgeyrmtYEPLYAYYPSrkhhskaFETVLSAL 289 Actinobacillus succinogenes 130Z

| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap