Conserved Protein Domain Family
PBP2_LrhA_like

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cd08439: PBP2_LrhA_like 
The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold.
This CD represents the LrhA subfamily of LysR-like bacterial transcriptional regulators, including LrhA, HexA, PecT, and DgdR. LrhA is involved in control of the transcription of flagellar, motility, and chemotaxis genes by regulating the synthesis and concentration of FlhD(2)C(2), the master regulator for the expression of flagellar and chemotaxis genes. The LrhA protein has strong homology to HexA and PecT from plant pathogenic bacteria, in which HexA and PecT act as repressors of motility and of virulence factors, such as exoenzymes required for lytic reactions. DgdR also shares similar characteristics to those of LrhA, HexA and PecT. The 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
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PSSM-Id: 176130
View PSSM: cd08439
Aligned: 12 rows
Threshold Bit Score: 242.624
Threshold Setting Gi: 118592366
Created: 22-Oct-2009
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
putative
Feature 1:putative dimerization interface [polypeptide binding site]
Evidence:
  • Comment:based on sequence similarity to the known structures of LysR-type transcriptional regulators.
  • Comment:Most members of the LysR family of transcriptional regulators are tetrameric, while CrgA assembles into octameric rings

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                       ## ##  #   # #######                                             
CAQ32691     100 VLTIGasdesadTILPFLLNRVSSVYPkLALDVRVkrnaymaEMLESQeVDLMVtthrpstFKALNLRTspTHWYCAAEy 179 Escherichia col...
AAA50843     103 TIRFGcpddyaeVFLPPLLRQFSSQHPqAIVEIVCgptprllEQLEKRaVDLAMislpddgANDDIIRReqLVWIGYPGl 182 Burkholderia ce...
P36771       100 VLTIGasdesadTILPFLLNRVSSVYPkLALDVRVkrnaymaEMLESQeVDLMVtthrpsaFKALNLRTspTHWYCAAEy 179 Escherichia col...
P16931       103 TIRFGcpddyaeVFLPPLLRQFSSQHPqAIVEIVCgptprllEQLEKRaVDLAMislpddgANDDIIRReqLVWIGYPGl 182 Burkholderia ce...
YP_001020664  94 TLRFGcpddyaaAFLPHILRSFAGRHPqVFVEVVCaptprllAQLGQHaLDLAListtegeRSAAILRRepLVWVGNRHd 173 Methylibium pet...
YP_001755546  94 TLRFGcpddyaqAFLPALLRGFARLHPdAAIEVVCaatprleDRLGRGgLDLALvsv-pltAGREILRRedLVWVAPRGa 172 Methylobacteriu...
ZP_01549758   93 LISFGcpedyltAFFPDLLKGFGARHGdVEIEVVCapttelhLLLQRRrIDLALisvpgedTSTRILRPesFVWVANHPa 172 Labrenzia aggre...
YP_002237322 100 GLTIGaseetadTILPFLLNRIGCFYPrMTLEIKVhphaaimAMLAEGrVDLALtthqppgFTSFILRTspTLWYCAAEy 179 Klebsiella pneu...
YP_002934083  29 RLVVGatddsadSILPQLLGRFTALYPkLAIDVRMqrnadiqLMLLDNeVDLAVsmgcepsLSSTLLRRspTVWFCATDy 108 Edwardsiella ic...
AAN08354     100 ELRIGasddtvdTLLPFLLNRIASVYPrMAIDVRIkrtqfieSMLDSHeIDLALttakishHPRTVLRStpVLWHCAPDf 179 Photorhabdus te...
ZP_03841092  100 ILKIGspddtanTILPDLLARFSGAYPrLIMEIIVkrspflmSMLENNeVDLAIsteehvgYPKIVLRVspSLWYCGKHf 179 Proteus mirabil...
NP_792434    100 VLRIGsphdiadTILPPLLSHIARSAPrLRLEIDVgrspflmDDLHRGkVDMVIstredptLEGFALRTspVWWICSAQy 179 Pseudomonas syr...
Feature 1                                             ######     ## ##                           
CAQ32691     180 vlqk-gepiPLVLLddpspfrdmvlatlnkadipWRLAYVASTLpaVRAAVKAglgVTARPvemmspDLRVLsgvdgLPP 258 Escherichia col...
AAA50843     183 epah-fdplPLALSdpdtldhiaacdalhragrdYRVAYASSSLagLIALVRSgqaFAVMTqtavpaDLAIVngdprLPP 261 Burkholderia ce...
P36771       180 ilqk-gepiPLVLLddpspfrdmvlatlnkadipWRLAYVASTLpaVRAAVKAglgVTARPvemmspDLRVLsgvdgLPP 258 Escherichia col...
P16931       183 epah-fdplPLALSdpdtldhiaacdalhragrdYRVAYASSSLagLIALVRSgqaFAVMTqtavpaDLAIVngdprLPP 261 Burkholderia ce...
YP_001020664 174 haat-qeplQLALSdpdtldhraarerldaagrpYRVAYASGSIsgLLAVVRSgqaIAVLTqaavpaDLQVLptdarLPP 252 Methylibium pet...
YP_001755546 173 aahw-pdplPLALGdpdtldhraaraaldqagraYRIAYASGSLsgLLAVARSaqaVAVLTraavppDLRILtrgsgLPA 251 Methylobacteriu...
ZP_01549758  173 peilqkdivPLALSapdtldhraartamdqagkaYRIAFASNGLagLLAIARSgqaISVVTrsavppDLHIVet--gLPP 250 Labrenzia aggre...
YP_002237322 180 vlak-gesiPLILLeepgpfrqdiiaaleaarvpWHLAHGASSLsgVKAAVKAglgVTARPvemmspDLRVAgisdgLPG 258 Klebsiella pneu...
YP_002934083 109 dftp-gipiELVVLdepstfrslattaldaaglpWRLAYVASTLpaLRAALKAglgISARPiemmssSLRVLgeaggLPR 187 Edwardsiella ic...
AAN08354     180 qlqp-nepvPLVVMdetnpfrqlaldtldeagvsWRIAYEAASLsaVRTAVNAevgITARPlemqnaDLRILgesegLPR 258 Photorhabdus te...
ZP_03841092  180 rfdl-deplPLVVLdepstyrdmminhldqqnirWRIAYIATTLsgARAAVRAglgIMARSielsgdDLRILgekegLPP 258 Proteus mirabil...
NP_792434    180 ihvp-geplPLILVdepsiyrryalhaleaanipWRQAYLASNLigIKAATRAglgVTPRSmemlgpDMRVLgesegLPR 258 Pseudomonas syr...
Feature 1                                  
CAQ32691     259 LPDTEYLLCYDPssnnelAQVIYQAM 284 Escherichia coli BL21(DE3)
AAA50843     262 LPAVGITLKFDRkrpshlTAAFAEHI 287 Burkholderia cepacia
P36771       259 LPDTEYLLCYDPssnnelAQVIYQAM 284 Escherichia coli K-12
P16931       262 LPAVGITLKFDRkrpshlTAAFAEHI 287 Burkholderia cepacia
YP_001020664 253 LPTVGLSVRFDLprppelVVEFAEHL 278 Methylibium petroleiphilum PM1
YP_001755546 252 LPRIGLTIRLDAahaaplTRAFAAHL 277 Methylobacterium radiotolerans JCM 2831
ZP_01549758  251 LPGIGVTLAYASpnpsaaTQAFGEFV 276 Labrenzia aggregata IAM 12614
YP_002237322 259 LPDTRYVVSCNPqtvselPQVIFQSL 284 Klebsiella pneumoniae 342
YP_002934083 188 LADTEYNLCLAPqcrnplAVTLFDAL 213 Edwardsiella ictaluri 93-146
AAN08354     259 LPETQFSLYSHSneqnesVLTVFSAI 284 Photorhabdus temperata
ZP_03841092  259 LPAIRYNLYLNAnspskaAQILFDSL 284 Proteus mirabilis ATCC 29906
NP_792434    259 LPDVTYHLWIRPntlnplARKAYELI 284 Pseudomonas syringae pv. tomato str. DC3000

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