Conserved Protein Domain Family
PBP2_CidR

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cd08438: PBP2_CidR 
The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold.
This CD includes the substrate binding domain of CidR which positively up-regulates the expression of cidABC operon in the presence of acetic acid produced by the metabolism of excess glucose. The CidR affects the control of murein hydrolase activity by enhancing cidABC expression in the presence of acetic acid. Thus, up-regulation of cidABC expression results in increased murein hydrolase activity. This substrate binding domain has significant homology to 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: 176129
View PSSM: cd08438
Aligned: 34 rows
Threshold Bit Score: 225.514
Threshold Setting Gi: 34498746
Created: 24-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                                ## ##  #   # #######                                             
LANL-NMPDR:VCD_002265 102 HLRLGIPPmv-gHVYARLFRQYRQTYPnVELTVVEYGgrkieQAILDGdiDVAVtmlspnqhpdLNTVALDHyPIFAVVP 180 Vibrio...
NP_391710              92 HVRIGLPPmigsGFFPRVLGDFRENYPnVTFQLVEDGsikvqEGVGDGslDIGVvvlpa-nediFHSFTIVKeTLMLVVH 170 Bacill...
YP_002770336           92 RVKLGMMPtvgsFLLPNVIALFKKQYPgIDIEMKEYSaklleIQMEQGsiDVALtvlpm-dqekFEAVPLLAeDLVAIVH 170 Brevib...
YP_002457397           92 KIHIGLPPitavTTFSHMLGAFKSEYPrIQVQLFEYGpkkieASLEDGllDFGIftpe--dpelFEWIWFEQdPLSVIMH 169 Desulf...
YP_001423339           92 KVKIGIPPligvLFFPKIIRGFKQLYPdVNIKLIEHGgnkvkQEVEDGvlDLGVviepv-deeqFDIIPLLNeELMLFVH 170 Bacill...
YP_001815319           92 TIRIGVPPligsLFFPRLLRLFRERYPmVTIEITEAGghaleKAVVAGevDLIAtvfp--adehLTVYPFIEeELHLFLP 169 Exiguo...
YP_001696544           97 SIKLGIPPligtLFFPKIAREFHQQYPdVHLELVERGaktvgTLVENGnvDMGIvvlpt-derkFSVQPFVEdQFYVFIN 175 Lysini...
NP_765701              92 HIKIGLSPmmnvQMFTNALNQFHRLYPnVTYEVIEGGgkiveNLTSNDdvDIGIttlpv-dhteFHSTSLYNeELLLVVS 170 Staphy...
YP_302275              92 HIRLGVSAimdvRLFTESLNQFHSMYPnVTYEVVEGGgkaveFYLNNDeiDVGIttlpv-dddiYHAVPLYKeKLMLVVD 170 Staphy...
NP_373066              95 HINMGMSAvmnmKILINILGAFHQQYPnVTYNLIENGgktieQQIINDevDIGVttlpv-dhhiFDYTTLDKeDLRLIVS 173 Staphy...
Feature 1                                                                ######     ## ##                 
LANL-NMPDR:VCD_002265 181 diplwrslttltwaqISQEPFYLFtheFTLSDHIhtcCQAAGYTPqvAARSSQWdFLVALVKSgvGVCFLPaplcqriqg 260 Vibrio...
NP_391710             171 pshrladekecqlreLKDEPFIFFredFVLHNRImteCIKAGFRPhiIYETSQWdFISEMVSAnlGIGLLPericrgldp 250 Bacill...
YP_002770336          171 rehwlagvdevsleqLKDEAFILFteeYAMHDVVrhaCKLSGFEPnvAYMSSLWdFVGEMVATqlGISLIPrsivrrlnn 250 Brevib...
YP_002457397          170 pnhplalrecidykdFAGEQLILYnsdYKLHDIIiagCKKAGINPeiAFATSQReLMTQMVAAklGLALLPtkicqvlns 249 Desulf...
YP_001423339          171 sahplvhkeivemqdLKNEPFILFsedFSLHDRIiqeCIRAGFRPniVYESSQWdFISEMIGEelGISIFPqsivkktdq 250 Bacill...
YP_001815319          170 eqhpladqpsialenVAEMPFVLFnetFSLHDVVlqaCETAGFRPavAHVSSQWdFLCLLVAEgnAVTVLPrslaqqmti 249 Exiguo...
YP_001696544          176 elhplaqfkeiqlqdLKNETFIIFaeeFALHDYViksCESVGFSPhvGYKSSQWdLIVELVSSnlGITLLPysiaakqtn 255 Lysini...
NP_765701             171 ndhhlahlnkvdmadLKDEEFVLFhddYYLKDQIienCKRLGYYPktVANISQIsFIANMIQQgiGISIVPeslvn-lmg 249 Staphy...
YP_302275             171 knskyakqsavylgdLKNERFIMFhddYYIKDQIiesCRKVGFHPkvVAKMAQItFIENMILDgiGVSILPesivs-iln 249 Staphy...
NP_373066             174 rehrlakyetvkledLAGEDFILFnkdFYLNDKIienAKNVGFVPntVAQISQWhVIEDLVTNelGISILPtsise-qln 252 Staphy...
Feature 1                                                       
LANL-NMPDR:VCD_002265 261 dGVLIYpit-paiDWRLGVVWHReryvsktAEAWIALC 297 Vibrio cholerae MJ-1236
NP_391710             251 eKVKVIplvdpviPWHLAIIWRKdrylsfaARAWLEHT 288 Bacillus subtilis subsp. subtilis str. 168
YP_002770336          251 gQLHTVnisypviDWQYALIYRKegylshaTKAFISFV 288 Brevibacillus brevis NBRC 100599
YP_002457397          250 eTIIYRpfsdsnlCLQLALVWKKgrylphaAHELLTFL 287 Desulfitobacterium hafniense DCB-2
YP_001423339          251 sLVKAIsivnpsiPWKVAIILKKgkyvshaVREFIRYI 288 Bacillus amyloliquefaciens FZB42
YP_001815319          250 kGVKTIpld-vrvPWQIGVAVPTgryqsyvTREWIRFI 286 Exiguobacterium sibiricum 255-15
YP_001696544          256 kNVKMIplanfdmPWRLGIITKKntyqsyaLKQLLNTM 293 Lysinibacillus sphaericus C3-41
NP_765701             250 nNVTSIqlenvelSWHLGVIWRKdaylnhvTRKWIEFI 287 Staphylococcus epidermidis ATCC 12228
YP_302275             250 kDITGIeitgadvNWNLGIIWKKesyinyvTREWINFL 287 Staphylococcus saprophyticus subsp. saprophyticu...
NP_373066             253 gDVKLLriedahvHWELGVVWKKdkqlshaTTKWIEFL 290 Staphylococcus aureus subsp. aureus Mu50

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