1AL3,2FYI


Conserved Protein Domain Family
PBP2_CysB_like

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cd08413: PBP2_CysB_like 
Click on image for an interactive view with Cn3D
The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold.
CysB is a transcriptional activator of genes involved in sulfate and thiosulfate transport, sulfate reduction, and cysteine synthesis. In Escherichia coli, the regulation of transcription in response to sulfur source is attributed to two transcriptional regulators, CysB and Cbl. CysB, in association with Cbl, downregulates the expression of ssuEADCB operon which is required for the utilization of sulfur from aliphatic sulfonates, in the presence of cysteine. Also, Cbl and CysB together directly function as transcriptional activators of tauABCD genes, which are required for utilization of taurine as sulfur source for growth. Like many other members of the LTTR family, CysB is composed of two functional domains joined by a linker helix involved in oligomerization: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal substrate-binding domain, which is structurally homologous to the type 2 periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcriptional repressor undergoes a conformational change upon substrate binding which in turn changes the DNA binding affinity of the repressor. 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. Besides transport proteins, the PBP2 superfamily includes the substrate-binding domains from ionotropic glutamate receptors, LysR-like transcriptional regulators, and unorthodox sensor proteins involved in signal transduction.
Statistics
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PSSM-Id: 176105
View PSSM: cd08413
Aligned: 22 rows
Threshold Bit Score: 277.196
Threshold Setting Gi: 9105737
Created: 27-Mar-2009
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
substratedimerization
Conserved site includes 8 residues -Click on image for an interactive view with Cn3D
Feature 1:substrate binding site [chemical binding site]
Evidence:
  • Structure:1AL3_A; Klebsiella aerogenes CysB binds sulfuric acid, contacts at 4 A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1              # ##                                            ###               #       
1AL3_A        94 SLYVATTHTQARYALPGVIKGFIERYPrVSLHMHQGSPTQIAEAVSKGnaDFAIATEalhlyddLVMLPCYHWNRSIVVT 173 Klebsiella aero...
AAB17996      94 RIRLGATHTQARYVLPPVIRRFAAAYPaVELQIHQGTPGQLVDMALRDlvDLAICTEalgdeiaLQTIPCYRWNRCLIAP 173 Thiocapsa roseo...
EAY89955      56 SLYVATTHTQARYALPNVIKGFIERYPrVSLHMHQGSPTQIAEAVSKGtaDFAIATEalhlyddLIMLPCYHWNRAVVVK 135 Indian rice
AAF83643     110 QLTLSTTHTQARFVLPPAVALIKQAYPeVTVHLQQAAESAVLDELDQGgaDIAIVSTagsapsaGLAVPLYRWRRLVVVP 189 Xylella fastidi...
YP_003146796  94 CFSIGTTQTQAQYVLPRTFAAFHKEYPnLKIDLQQGTTEQVIEQLRKQeiDFVIASGtaglgpdIVQIPCYQWDRSILFP 173 Kangiella koree...
NP_273430     94 SLTVATTHTQARYALPLIVADFVKRYPkVNLTIKQGSPAAIARMVTSGeaDLAIVTEriddhpeLGKLPCYDWTHAVIVP 173 Neisseria menin...
YP_286110     94 RLVLAATHTQARYALPIVVRDFMAQHPdVKLEMHQGSPTQIAEWVVAGeaDIGIATEaldqypqLITLPVRQWTHCVIAP 173 Dechloromonas a...
NP_885447     94 GLVIACTHTQARYLLPRVIPAFRKQFPkVHLSLAEGSPSQLAEMVLHEqaDLALATEslaltpgLATLPVYTWEHTVVVR 173 Bordetella para...
EEF80574      94 KLTIATTHTQARYVLPRTIIHFTNMHEsVGFQLKQGNPHQAFEMVSKGmvDFAIASEamddfsnLITFPCYSWNRLVLVK 173 Methylophaga th...
EEV23674     107 ELSIATTHTQARYVLPWVVQRFKQQFPnVHLILHQADPESIANMVAQGqaDIGIATEsllahdnLHCIRYYDWYHHVIVP 186 Enhydrobacter a...
Feature 1                                         #                                              
1AL3_A       174 peHPLatkg-----svsIEELAQYPLVTYtfgFTGRSELDTAFnragl-tpriVFTATDaDVIKTYVRLglGVGVIASMA 247 Klebsiella aero...
AAB17996     174 rsHAVldlq-----sitLAALCTVPIITYvfgFTGRGGFSDVFsragl-hpnvVLSAADtDVIKTYVREglGVGIIAALA 247 Thiocapsa roseo...
EAY89955     136 pdHPLagks-----sisIEELAAYPIVTYtfgFTGRSELDTAFnragl-tpriVFTATDaDVIKTYVRLglGVGVIASMA 209 Indian rice
AAF83643     190 cgHPLdtvg----rtldLAALAEYPLVSYdssIRPMSSLQRAFaslgl-esriVLTALDaDLIKTYVRAgvGVGILAEMA 264 Xylella fastidi...
YP_003146796 174 qdHELgdlr-----kitLEDVVKYPLVTYnlsDKNSSSLMRACkkekl-epniVFTARDaDIIKTYVRKgfGVGIIANMA 247 Kangiella koree...
NP_273430    174 ndHPLlecr----nplrIEDLARFPLITYefaFNAGSSIARAFskarleqpdvALAAADtDVLKTYVRLglGVGLMAKMA 249 Neisseria menin...
YP_286110    174 egHPIlqsv-----plsLNELARWPLITYdtaFTGRSRINRAFerinv-qpnvALTALDaDVIKTYVSLglGLGIISALA 247 Dechloromonas a...
NP_885447    174 pdHPLteltssqarrltLAQLAEYPIVTYdraFTGRTTIDEIFanqgi-hpdiVLEAIDaDVIKTYVDVglGIGIIAGVA 252 Bordetella para...
EEF80574     174 rdHPLasga-----pisIEQLSKYPLVTYengFTGRYQLNNAFqkagl-epniMLTASDaDIIKAYVKMdlGVGVIASVA 247 Methylophaga th...
EEV23674     187 vgHELenrt-----eidIQTLAKYPIITYhggFTGRGAIDRAFsaael-tpniVLTALDaDVISTYVGIgmGVGTIAEMA 260 Enhydrobacter a...
Feature 1                                                    
1AL3_A       248 VdpvsdpDLVKLdangIFSHSTTKIGFRRstFLRSYMYDFIQRF 291 Klebsiella aerogenes
AAB17996     248 YqprddaDLGIRdladLFPWEVTKIAYARgkYLRRFHEHFIDIF 291 Thiocapsa roseopersicina
EAY89955     210 VdpvqdpDLVTVdardIFTYSTTKIGFRRstFLRSYMYDFIQRF 253 Indian rice
AAF83643     265 Vnav-dtDLRAWpvpaPIPECIAWAVLPRdrVLRDYVLELVHAL 307 Xylella fastidiosa 9a5c
YP_003146796 248 YdpqadkDLISYptsdMLPQCTTWLAFHKnlFLKQYMKDFIAMF 291 Kangiella koreensis DSM 16069
NP_273430    250 YnpdtdgDLQLVdaahLFEPSPTWIALRSdtYLRGYAYDFIQAF 293 Neisseria meningitidis MC58
YP_286110    248 FdaqrdaGLVAIdaahLFESNTTRLALRRgtYLRRYDYDLITLF 291 Dechloromonas aromatica RCB
NP_885447    253 YdprrdaNLVGLpvghLFGTHTTRVGVKSgvFLRDYVYTFMEMM 296 Bordetella parapertussis 12822
EEF80574     248 YdpdddcDLVSInvreLFDDCVAKIAIRKgvSLRSYMYDFIELF 291 Methylophaga thiooxidans DMS010
EEV23674     261 FegqhyrNLVKIpt-kIFGKHVTWIATRVdgDIRNFGKAFIDIC 303 Enhydrobacter aerosaccus SK60

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