Conserved Protein Domain Family
PBP1_SBP_like_3

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cd06329: PBP1_SBP_like_3 
Periplasmic solute-binding domain of active transport proteins
Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Statistics
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PSSM-Id: 107324
View PSSM: cd06329
Aligned: 26 rows
Threshold Bit Score: 318.468
Threshold Setting Gi: 148254033
Created: 30-Jan-2008
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
putative ligand
Feature 1:putative ligand binding site [chemical binding site]
Evidence:
  • Comment:based on sequence similarity to the periplasmic Leu/Ile/Val-binding protein with bound valine

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                      ##
gi 17546469   33 KIAWIDPLSGLmgALGQNQLRSWQYIAelatqk---nwagdGTRFEVVGFDNklspQESLTVLKQVADq-GIHYIAQGNG 108
gi 55380263   48 TVASLNPMTGPfsSLGPGQRTGAELAVteinn-----nddyDFEFELVTGDTeteaGAAQSEAQRVVQedGAEFVFGAIS 122
gi 69937277   30 AIGVFVPTTGVlaPLGNDMRNGFLLAAkga--------ivkGEPVRLIVEDTggnpANGLRKAQKLVLedKVSLLLGGAS 101
gi 148254033  35 RIGVLTVRSGPskPIGDDILAGIETVVrqrg-------kllGRPIELVVEESlfnaQTAVTKATKLVQq-DNVAAILGTS 106
gi 72384136   32 RIGVPTGITGNwsALGAQVQRACKLFAknlna----kggidGKKVEFIYEDTqgdpAACVRKVTELVEgrGVKLITGVIS 107
gi 121611028  33 RIGLVTSRSGGfsTMGADVARGIGFAVdeana----kggvdGRRIILAEGDDestpDAGRRVAEKLARd-GHNLLIGPIT 107
gi 121605611  33 KVGLVSSKSGVfaQQGEEVMRAVQFAIdeana----kggvdGRKVEVQSGDDegtpDAGRRVAEKLARd-GHNLLIGAIP 107
gi 90422355   28 KIGVVTPLSGTytPIGQQVRWGLELAAsevna----aggimGRPVQLIFEDEeanpSVAVQKAEKLFDvqKVDFLTGTVN 103
gi 91780542   51 KIVGIVALSGTygIYGDDMRKGLDLAVaqrk-------tvlGRPIQVVWEDTqskaDVASQKAIKAASs-GADLIFGSVA 122
gi 163721967  51 KIGHLNPFSGPaaMNGELYHIALHWVAhdlnkqggvmvdgkRKKIEIIKGDTmskpINAKKAAERLILgdKVDLLWGSTG 130
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1        #                           ###                                                 
gi 17546469  109 SsvgmaledavakynernpgKEIVYLNYAAVDPDMTng-kCNYWHFRLDANSDMKMEALTSYLAkdp--gvkKVYLINQN 185
gi 55380263  123 Ssvalgl--------ndfaaQSEHIYFPGGAAVPITgs-aCNEWVFRFETNTAQIAEAISSYSVnnl---gnNVWFHYAD 190
gi 69937277  102 Savtlgi-------naqaprLNVPIVTTNAQAVPITge-qCSRFMFRTVPHDGNTAKASAAMFAerpdmigrKWFVVYHD 173
gi 148254033 107 Tvetlal-------lsvadrLGVPIVTSNSGSAAITre-rCNRWVFRTNPEDLMSVVSLEALIAqtprlhnaKWFTIGHD 178
gi 72384136  108 Sgeslai-------mprlagWDALYLASISGVGSLTga-nYVPNAFRTCTSGPMRARAISLWLAksp---kqRFFTIAQD 176
gi 121611028 108 Ssislai-------sqnlarWDAAFIGTISKADKLTtd-aCNPRFVRTNHSDAMDLAMIGEWVKgie---gnDFAILAAD 176
gi 121605611 108 Ssislai-------aqnldrWDAAYFIVASKSDKLTgd-tCRARSFRTNHSDAMDIAMINEWAKslk---ekKFAVLAAD 176
gi 90422355  104 Sgstlav-------gqtaerAGKLIATTVSFADSITtd-kCSPNVFRVNARAGQQSTALAAWVIkqk--pkaKVYFLGPD 173
gi 91780542  123 Ssetlal-------eqisesRKIPLLITQSSADAITa--kPHRYVFRTREKFSNEVLMVQHYIEknk---saSVYAVVAD 190
gi 163721967 131 Shislvc-------qqtaakYKKIYVSALSISDSLMdaenFNRYTFHTPWTTSQAAKSLAYFYAkrp---ekKFYILCQD 200
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1          #                                                      #                      
gi 17546469  186 YsFGHQVARAAKAYLkrkrpdIEIVGEDLHPlaqvkdFSPYVSKIKASgadTVITGNWgs--dLALLIKAGKDAGl--nA 261
gi 55380263  191 YaYGDSVYNRTSRRMesasddYTEVGTSTSElga-snYGSFITQISNSdadVVVLGMTgg--dLVNFTNQAADQGltdqI 267
gi 69937277  174 YaYGLSNKAEFSHIPg-----IQIAGEAGRPvgt-adWSSAIAQIQASdadGIYLALAvg-ddLTAFVNQARGYGl--dF 244
gi 148254033 179 YpWARLVAGATKGVKa-----VQYAGEAFAPldt-sdWAPFIAQAKASg-aTVVIAPVtlgvpLLQFIQQANEFGlt-kD 250
gi 72384136  177 YaWGKNSLATFEKLItd--lkKQPVGNVLSPlgt-kdYSSYIARIREArpdVLYVAMSgd--dATAFLKQAGQYRlaerM 251
gi 121611028 177 YvWGQDSAKSFEAAVta--qgKKVSLKLFAPlgt-kdYAPYIQQIKAAnvdAIWVADVs---gGIAFVKQAADFNlipkT 250
gi 121605611 177 YvWGRDSGESFKKAAet--sgKSVPLSLYVPmgt-kdFSPYIAQLKDSgvdAIWVAETgr--dAIAFVKQAEEFGlipkT 251
gi 90422355  174 YeMGRSTVATFKKTVea--lgAVPAGEVFAPlds-kdFTQYFGQLRQArpeVLYTSVAgn--dTVRLLTQMQDFGllkdL 248
gi 91780542  191 AsVFRDGWTEIQHGLva--dgVALKGDDVVPfga-tdYSVVVGKAAASganTLVLFLAgs--dAVTFIKQAAAVRlmdhM 265
gi 163721967 201 YsFGHDLAEKFKGYLkefrpdAEIVGEDYHPlft-kdFAPYLEKVKASgaeVIFSGDWmp--dSVNLLKQSRDSGl--nL 275
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1             #                                                                          
gi 17546469  262 NFYTYYasstg-vptaMGPAGADHVKYVGYwnvnn--dgfkgADIVEGYKKKyn--------------dDYYLMASYTGI 324
gi 55380263  268 AVVGPTqtfqs-vragTGANSVGTFGGARYdpsle---tgdnQAFVEAYSSEndr------------qpGNFARVGYDSM 331
gi 69937277  245 PIMTPAgipdt-mlqaLGKNGVGMIANGLTaswmqedespqiAELVKAYHEEygi------------vpGYQAIQAYAGM 311
gi 148254033 251 AVLVSPiglpdwlvdkLGEASTGVISAGSWaawrteeqwpvtRGFNEAHYQLhgr------------vaGMQSLQSASAA 318
gi 72384136  252 EIVTEVldml--ntkpLGDTGLGLAGISQYnyayd---tqanAEFVRMFKAEygd------------ipDTWEGETWQCL 314
gi 121611028 251 PLIGHAlvsnf-vidaTGKAMANVPGNVGFtpdid---tpqtKAFVSAFKARhhr------------lpSDTEGQAYNGA 314
gi 121605611 252 KLIGHSliqnf-mingTGKALEGTPGTTAYtpdid---sprnKAFVTAWKAKfnr------------lpTDNEGQAYNGA 315
gi 90422355  249 LVVGASgtvtsqniaaIGGAAEGFGTGVGYstqid---tlenKTFVAAFKAAnks------------dpDLYGADSYGLI 313
gi 91780542  266 RVVGPTimdds-makaAGDAALGVVSAVGYhhsid---ndanRKFVSEYRKSysg-----------iapSFGAGEAYEGI 330
gi 163721967 276 PFANMYmddpitlgvvGVEGSAGLVNANQYmindm---dsrtRDLNKVWHHLhdtkweepynsslyvwpLGVVASAINTT 352
                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|.
Feature 1                                                           
gi 17546469  325 ALLAKAVkqARSAEPGKVARALEgmk-vdsLNGPFEMRAsDHQGQQPLYIA 374
gi 55380263  332 RLMAKGMheAGSTEPGDVRDALEggt-fttVLGDITLREsDHQATNPTWMA 381
gi 69937277  312 QFVLAVLeaADEISTDAIIKALEdtv-aetVVGPIDIRAeDHQGMQGTFVA 361
gi 148254033 319 TVLFDAIekANATSPEAIVKALEtve-setPVGPLKFQAgGREALAPLFLG 368
gi 72384136  315 EFLAAGIrkAKSTDTTAIRKALEgme-iatVKGTVTMRAcDHQAEQPVFMA 364
gi 121611028 315 MVLFQGVtlAKSVQPEAVTKALRgar-vdtLYGKMTIRAaDNQLVMPNYVA 364
gi 121605611 316 QVMFDGVklAKSVKPADVSKALRgaq-ldtLYGNLTMRAaDNQLLLPNYVG 365
gi 90422355  314 YFYKAAVekAKSTDTDKVREAMRgle-wntPQGKKTMRAgDHQAIQPMYVV 363
gi 91780542  331 NWMLDVIerTHSSDPAVWISAMEksadpnsIEGAKRMRWcDHQADRVSYMV 381
gi 163721967 353 YWMMDVVkrAGTTDPEKIIETWEgdq-ydsFAGVLEMRAcDHVTVRDLYVS 402

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