Conserved Protein Domain Family
PBP1_SBP_like_2

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cd06328: PBP1_SBP_like_2 
Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria
Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. 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: 107323
View PSSM: cd06328
Aligned: 11 rows
Threshold Bit Score: 425.668
Threshold Setting Gi: 88855352
Created: 11-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 39937457   20 KIALIYGKTGpl-eaYAKQTETGLMMGLEYATk----------------GTMTLDGRKIVVITKDDqskpDLSKAALAEA 82
gi 148658193  73 KVGLITDVSGtl-aiYGAHILRSFMLGMEYMAgapgaagekfdfntakeNTFKVDDCEIQVFVRDDasnpQNTATIAREL 151
gi 72160478   39 KIGLVYSMSGpl-atYGEQYYQGFEAGLEYATg----------------GTMEVDGRPIEVTTRDDagdpTKAVSAAREL 101
gi 88855352   40 DISIITSQTGpl-aaYGEAYLAGFDAGLDYATd----------------GTGTVDGRELNIEITDDagdaDKAVTAAKDV 102
gi 88798760   26 KIAHIYPGSGpl-gvYGKQSHDGFMLGLEYATd----------------GSMMINGEKIVVIEKDSqanpEMGRSLLEEA 88
gi 84502251   28 KIALIHGLSGsafeaFSKQAQTGFEMGIEYGTd----------------GTGEINGRPIEIITKDTqfkpDVARAVLAEA 91
gi 163722458  31 KIGIIQGLSGpl-eiYGKAEVTGFKMGLEYFTk----------------GTNQINGRDVTLVIEDTqlqaARAKMLLTKL 93
gi 159900322  78 KIGLITDQSKal-slYGTQEINGFMLGLEYATn----------------GTMQVAGRPIEVIVKDDennpERARQLAREL 140
gi 42781079   41 KVGVLASLTGpl-esYGKQTVNGFELGLDYATg----------------GTGKVEGKKIKFVVEDTetkaEVAVKKATKL 103
gi 73541674   29 RIAHVYDKTGal-eaYAKQTQTGLMMGLEYATn----------------GTMTVNGNKLVVIEKDTqgkpDVAKAQLAAA 91
gi 163849162  74 VVGLMTDNSGll-aiYGPMLERGFTLGLEYATn----------------GTNQVAGRPINVVVKDTasnpETGVSLAREA 136
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                    ###                     ###                                         
gi 39937457   83 YQddGADIAIGTSSSaaaladlpvaeENKKILIVEPAVADQITGekwnrYIFRTGRNSSQDAISNAVAIGkq-gvTIATL 161
gi 148658193 152 IDvnKVNILVGTVSSgatatlqgiafENKIPLIVAPAAANDITGkdfniYTFRVSRNNYQDAMNVCTYLTqk-ykKFVQI 230
gi 72160478  102 IGe-GYDIIAGSTASgvavqvaplaeQNKVLFISGPAATDAITGin--dYTFRSGRQTYQDILAAGSFMDdpegkNVIVF 178
gi 88855352  103 IGq-GQKIIIGTVSSgialalaeqaeQNKVLYISGPAAADAITGvn--nYTFRSGRQSYQDVATAGTFIGdpagkSVLVF 179
gi 88798760   89 YAddEVDLAVGPVSSgvamamlpvaeEYEKLLIVEPAVADSITGpdsnrYIFHTGRNSSQDAIANAKAIGrp-gvSIAVL 167
gi 84502251   92 YGddEVLLAVGATSSgvtvgmlpiaeEYEKILIVEPAVADSLTGpdsnrYVFKTSRNSSMDMQAQALALQpdenlVVATL 171
gi 163722458  94 YSddKVDLAIGPTSSgvalavlpvarDFKKILIVEPAVADSITGkdwnrYVFRTGRNSSQDAISNAAAVAkp-gvSIACI 172
gi 159900322 141 IEkdGVELLQCCASTssaltvieiakENNIIAMIDPAAGPQITGsnfnrFVFRTGRNTLQDALTAGPYMVenvgkEFVQL 220
gi 42781079  104 LEeeKVDFLVGSSSSsdtlavlplaeEYEKIMVVEPAVADSITGknwnkYVFRTGRSSSQDAIAGAAAIAkk-dvKIATF 182
gi 73541674   92 YSddRADIALGPTSSgtalamlpvaeEYKKILLVEPAVADSITGdkwnrYIFRTGRNSSQDAISNAVALDkp-gvQIATL 170
gi 163849162 137 IEsdGADVLVGSPSSpvalaisavaaENKIVYIAAPAATPALTGenfniYTFRAGRTSVQDALTMSAALLqt-gkKFVQI 215
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1             #                                                                 #        
gi 39937457  162 AQDYaFGRDGVAAFKEALak-tgATLATEEYVpt--------tTTDFTAVGQRLFDAlkdkpgkkIIWVIWAGgg--dPL 230
gi 148658193 231 APDYaFGRGSAAAFRDACgklggEFVADDIFApa--------dTTDFTPYMERILNSg------aEAYIVTWAgs--gFV 294
gi 72160478  179 AQQNaFGQDNVDAVTTVLea--qGATVDSVLApp--------dTTDLTPFAEQVRQAdp-----dLLFVAWAGetasaMW 243
gi 88855352  180 GQDTaFGQGNVAAATAVLgg--qGADVTSLLVpe--------dATEFTPFAQQIVDAqp-----dLVFVAWAGatsgaMW 244
gi 88798760  168 AQDYaFGRDGVAAFKAALeg-tgADLVHEEYVpt--------tTTDFTAAGQRLFDAlkdedgekLIYTIWAGsg--nPM 236
gi 84502251  172 AEDYaFGRDGIEAFKSALeg-tgAEVVTEEYVpq--------gTTDFTAYAERMFNAlkdregrkVILIYIAGgg--dAP 240
gi 163722458 173 GQDYaFGRDGIAAYKEAAek-lgAKIVHEEYCdp--------kGTDFVAPIQRIIEAmkdlpgpkYIWVIWAGkg--gPI 241
gi 159900322 221 APDTdFGKGSAASWRSIIea-ngGTFVSDDVFip-------adTTDFTPYLQKLLDAadek-qakVLMVTWAGa---nFP 288
gi 42781079  183 APDNaFGREGIAAFKAGAkk-lgANIVNEQYAdt--------nSTDFTANIQNIISSkp-----dYLFIVWAGan--sPW 246
gi 73541674  171 AQDYaFGRDGVKAFKGALk---nAKIVHEEYLpt--------nTTDFTAGAQRLFDSlkdkpgrkVIFIIWAGa---gNP 236
gi 163849162 216 AQDNaFGRGSAGAFYLTVka-lgGEFVLNDTAegagtvfappdTTDFTPYINQLLDSga-----eVLIVTWSGt---gFV 286
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                              #                                                         
gi 39937457  231 TKLQDMDPKryg-ielSTGGNILpala--aykrLPGMEGATYYYYDI---PKNPINEWLVTEHQKRFnap-pdfFTAGGF 303
gi 148658193 295 PLFQAANDLgvn-dkmSLASAFIdnalmpvfygGAVGSTSGIVYHYTa--PKNPANDFLVANTKPRYgvn-pdiFDADGM 370
gi 72160478  244 KALNQQGVLdat--evVTGLDIKasy----pvfGEAEGKISFLSHYFd-gAAQTEAEQMMREFVEDNgge-vdlFTPDGF 315
gi 88855352  245 EALSQQGVFdsv-pvaTGLGDVStyg-----ayGPASDKISFLNHYFggaTDNDANSAMVSYLEAEGkqa--dlFSPDGF 316
gi 88798760  237 SKLQAMNPEryd-igfALAGNILaalp--aykqFPGAEGATYYYYEN---PNNAINDWLVSEHQKRFdsp-pdmFTAGGM 309
gi 84502251  241 GKIQAMDPSryd-ieiSMGGHILpvlp--tykrFPGMEGAVYYYHEA---FDNPVNEWLVKEHKARFdsp-pdfFTAGGM 313
gi 163722458 242 PQLISAGLDkyg-ieiTSGGNVLaalk--mmkpLDGMQGATYYYYEN---PSNPVNDWLVEEHFKRFnep-pdfFTCGGF 314
gi 159900322 289 RLFQQMQEQgvl-dklTLATGFGdnvtmpmvyaDAVGSVGMIAYHYTl--PKNEVNDWLVEQHKAKYgsy-pdlFTAGGM 364
gi 42781079  247 KQLKDMNVEaqgikisTGAPDIPalkt---mdaLVGMQGFSVYYHTL---PKNKVNDWLVEEHKKRFngavpdlFTAGGM 320
gi 73541674  237 FKIADLDPKryg-ieiASGGNILpamt--syknFPGMEGATYYYFGI---PKNKANEWLVSNHYSKFksp-pdfFTAGGM 309
gi 163849162 287 PMFQQMQQLgvf-dvmTVATGFGdnqtmvngyaDAIGSVGVSVYHYSl--FDNPVNNWLVERHKAAYgvp-pdlFTESGF 362
                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....
Feature 1                                                              
gi 39937457  304 SAAMAVVtavqkak-stdteklIAAMEGMEFDTPKGKMVFRKeDHQALQSMYHF 356
gi 148658193 371 NAAILLVealrktgsdvgsealIKAMEGMSFEGPKGTVYIRPeDHVAIQDMYIL 424
gi 72160478  316 TAAQMIVhaiseg---dtteerIKALEGWTFEGVKGTLTIRAeDHALLQPMYQV 366
gi 88855352  317 VAAQMVVqavregg--ddvdamIAALEGWTFDSAKGSITVRAeDHAMIQPMFQV 368
gi 88798760  310 SAALAIVnaiesan-stdtedlIETMEGMSWETPKGTMTFRKeDHQALQPMYHF 362
gi 84502251  314 SAALAVVkalkeap-dyetetlIETMEGMSWDTPKGQMTFRPeDHQALQDMLHF 366
gi 163722458 315 AAAGAVVkaitaag-stdteklIAAMEGMEFMTPKGMMKFRKeDHQALQTMFAF 367
gi 159900322 365 ASGIATVrgleatkgdtnadalIAALEGMSFEGPKGIYTFRKeDHQALQPMYMV 418
gi 42781079  321 SAAISIVealkktkgdtdvdtlIKKMEGMEFDTPKGKMKFREkDHQAMQTLYSI 374
gi 73541674  310 SAGIALVealkktggdtnteklISTMEGMAFETPKGRMVFRKeDHQAMQSMYHF 363
gi 163849162 363 NAAIMLVkaleetngdpaadglIAALEGMTFDGPKGTYTVRTeDHVLLQPMTLV 416

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