Conserved Protein Domain Family
PBP1_aromatic_compounds_like

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cd06332: PBP1_aromatic_compounds_like (this model, PSSM-Id:107327 is obsolete and has been replaced by 380555)
Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes
This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Statistics
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PSSM-Id: 107327
Aligned: 43 rows
Threshold Bit Score: 318.38
Created: 6-Mar-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 Pseudomonas aeruginosa AmiC complexed with butyramide

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                               ###     
BAC65298     24 KVGFISTLSGpiagFGLEIRDGFNLALknsgnkigGLPVEVVEGDDqaspDVGKQLADKMIKrdKVDFLTGIVYSnvmla 103 Pseudomonas fluo...
NP_770027    27 KVGVTATLEGtytvLGEDGMRGHQTALnvlgkkigDKELEFIVASTdatpDSAVRAVRKLIEqdKVQILLSPLSGdegia 106 Bradyrhizobium j...
NP_888137    45 RIGALNSYSKvfaaLGNANLNGMNMYFdqigntiaGRKVEVIREDDeinpQVGLQKLKKLVEsdRCDIVTGIQASnvama 124 Bordetella bronc...
YP_293377    31 RVGLLTIKTGvaagIGQQMQDGFEYLLherggklaGRDVEVVVADTaaspAVAKAKFLQLTErdRVDVVVGPLAAfeana 110 Ralstonia eutrop...
YP_317285    35 RLGTLASLEGplaiNGQDAYRVVELLLeeagykagGRKIEWIRESSngkpDVALARTRKLIEqdKADVVIGPLAGaegia 114 Nitrobacter wino...
ZP_01000577  26 KIGVISVLEGafagPGMDGVRGAKLAVqeaggavgGNEIEIVTMSSdaspDSAVNAARKLIEqdEVDLIVGPLSGsegla 105 Oceanicola batse...
ZP_01038411  25 KVGLLLPFSGvyaaLGNDIEAGFTTALeqfg-setPATFEIVREDTevkpPVALAKAKKLILqdKVDVISGIVSSgvlga 103 Roseovarius sp. 217
YP_922061    47 KIGVLLPYTGpfglYGKPMEAALTARLklddfkvgDRSIELVFEDEatdpATAVSKANKLVDqdGVSAVVCCATGaatla 126 Nocardioides sp....
ZP_01746889  28 KFGILVATEGafaeGGADGIRNVELAIqqaggtagGLTIETVVAPTdttpDTTVRQARKLIEqdGVDIILGPLSGsegia 107 Sagittula stella...
ZP_01893265  33 KIGVMLPFSGiyaqLGEAGRDGLKLALkenaanlhGADIEFIELDTeakpSRAPELASSLLNqhEADFIIGPVHSgvamg 112 Marinobacter alg...
Feature 1                      #  ##                                              #  #          
BAC65298    104 v--gppafaSKTFYISAAAGPAalagercnkyffGLSWQNDGQSEAVGSYLNskn-ykKVFILAPNYt-GGKENLEGFKR 179 Pseudomonas fluo...
NP_770027   107 vk-nfakthPELTFINAASGAQettyvdpapnffRYNMDGAQWQVGLGKYAYddkkyrKIATVGEDYsfIYTQVFGLVLE 185 Bradyrhizobium j...
NP_888137   125 a--veylrqSKAFMLCSGAGVAqlsytg-mpyffRCSISTVPIHATMGEWFYdnv-akEALLTASDFa-GGRNTLEEFKA 199 Bordetella bronc...
YP_293377   111 i--rddiarAKVPVILSSAAAEdltqrkadpwmvRSSSTSAQAMHPFGEYAAttlkyrRIAVVAEDLs-FSHETVAGFQR 187 Ralstonia eutrop...
YP_317285   115 vr-dysrtvPNKTFINGSSASQdntlrnsssnyfRFSTDGTQWTAGLGEYTKnvlnigEVTVVASDYa-FPYSQVFGFSL 192 Nitrobacter wino...
ZP_01000577 106 lr-dlsksyPDVTFLNGSSASQdttlrdasenffRFGGDGAQWMVGVGDYAFndlgyeSVAIVGEDYs-FPYTQVLGFMA 183 Oceanicola batse...
ZP_01038411 104 v--rdmvhgAGVPLIVANAGNDeatgeacspyitRMSFSNGQVNRPMGQWMYdqg-irKVYTLAPDYa-AGRQMIDGFVQ 179 Roseovarius sp. 217
YP_922061   127 v--gpilaeRGIPQLGPIPNPDglsef---ataaVAAPTAGHDAGKLGTYAAtdldyrSAVIVASDFa-YGHEVAENFKK 200 Nocardioides sp....
ZP_01746889 108 mrdyaktipDKTVINGISGALEttwvdp-aenffRFNLDGAQWGAGLGSYVVnekgwtKVATVAADYs-FGYTNFLGFAV 185 Sagittula stella...
ZP_01893265 113 m--ikmlrgKDTVMIIPNAGAAaatgplcspnmfRTSFSSWQPSYPMGKVALekg-ykKVYAISWNYg-MGRESLDAFEE 188 Marinobacter alg...
Feature 1                                                                           #           
BAC65298    180 FFk---GEVSSEVYVklg-qldFASELAQIRSTkpdAVFFFlpsgmSINFIKQYVGAgldkdIPYFSTGhsaded---vv 252 Pseudomonas fluo...
NP_770027   186 FCga-gGQVTNRQWVplg-tkdFASVIAALPDDv-dAIYLGlggadAVNFLNQYQQAgg--kAHLMGGSimidqtilssk 260 Bradyrhizobium j...
NP_888137   200 GFsrkgGRIIKEIYPplg-nndFSPYLADIRSMspqATFSFyagtdAVRFVKQYDEYglkakSRLTGSGfmldsd---ti 275 Bordetella bronc...
YP_293377   188 TFeeagGKIVQKLWApfn-asdFATLIAQIHPNv-dAVLINfsggnATRFLKQYRDYglkqkIPLLAGMntvdes---ll 262 Ralstonia eutrop...
YP_317285   193 EFtragGKLNYLWTPfgt--sdYTSLIAQIPKSs-gALYVVyggsdGLAFLTQYAQAgg--sLPLLGGTlladqtlfsar 267 Nitrobacter wino...
ZP_01000577 184 EYceagGRVPEKFWTpig-nkdYSSIVYSIPQDv-dAIFVVlggadAVNFLTQYAQAgg--dKPIIGSSvtidqsvldsq 259 Oceanicola batse...
ZP_01038411 180 TFtaagGEIVGQEFTpfqktqdFGPYMAQAKSSgaeAVFVFyaggeAISFVKQYDSFglkaeLPLYGSGfltssl---yv 256 Roseovarius sp. 217
YP_922061   201 GFteagGSIVKEVYAplg-tsdFASYLSQLPDAd--VVFAGfagadAIRFVQQYDKFgvkakMPLIGHGplvtel---vl 274 Nocardioides sp....
ZP_01746889 186 DFcsagGDIVERFWVplg-ssdFGGVIASLPDDv-dAIYLGvggtdAINFLNQYSQAga--dTNLIGGTimadqtvltsr 261 Sagittula stella...
ZP_01893265 189 SFtaggGEIVEKVLLpfp-stnFQSHVSSIADTnpdAVFTFfagggAIKFVKDYDAMglrgkIPLLGSGflteg----tl 263 Marinobacter alg...
Feature 1                                                                                       
BAC65298    253 tavGEQMVGLKNAAHWawdlknpqnEAFVADFKKTygri-----ptmYAFQGYDVVRLLDsavkdvkgnlsdke--alht 325 Pseudomonas fluo...
NP_770027   261 gnaKNALIGTIAASGQadtwedpgwQKFVKAYQDAfppnkrfpspslLATNYYGSTMALIlalrevngdlsdnq-skfrt 339 Bradyrhizobium j...
NP_888137   276 paqGRAALGALNSLHYadtldnpanLKFVADYRARfkdy-----psvYSEYGYVAARIIHlaleavdgnsedkd--klra 348 Bordetella bronc...
YP_293377   263 ekmGDEAVGIISAGWYsgaistpvnERYVEGYRKQyhtt-----pgfYATGGYSAGLVLEqalqaggsatlsgr-alada 336 Ralstonia eutrop...
YP_317285   268 gphRKVLEGTISAGPIgdhydnpvwKDFQARYVRRwskdvgqqtpgtLAFAYSTNLQATLlalnavdgdlsgnqeafrea 347 Nitrobacter wino...
ZP_01000577 260 gpfKDLLVGAPSGTPTvsnfegeewQAFVASYNEAfpdgf--sapsiFGHHYYMSTKAAMlaleevggdlsdgqeafraa 337 Oceanicola batse...
ZP_01038411 257 naeGPAAEGVITALHYvptldnpanAQFVEAFKAKtgrv-----pseFAVHGYDAGRALIeavkagatdres-----lan 326 Roseovarius sp. 217
YP_922061   275 nqiGPAAVGVGAAFYYsstldnaenERFISTMKAAnpdf----vpshFTAGAWASGSVLLdaieragddatdge--klaa 348 Nocardioides sp....
ZP_01746889 262 graKEALIGTPTSGPLaddnpdpawQEYVKAYQDAfpegerfpspslFGVGYYVAALAAIeglnevdgdlsdgq-aafkn 340 Sagittula stella...
ZP_01893265 264 kaqGEAAEGVMTGLHYaeqldvpknREFREAFNTEyghy-----pdiYAVQGYDAGQAIAntidqlkgdisdkq--avis 336 Marinobacter alg...
Feature 1                                       
BAC65298    326 almttdfksLRGNFKFNTn-QFPMDsFYLREV 356 Pseudomonas fluorescens
NP_770027   340 alakieldaPNGKIKLDSn-RQAIGtNFVTEV 370 Bradyrhizobium japonicum USDA 110
NP_888137   349 amraikldaPRGPFRFNEe-TQSPIhNVYIRE 379 Bordetella bronchiseptica RB50
YP_293377   337 mhavrlsqsPRGPLTLDRf-GNPVVtVYIRKV 367 Ralstonia eutropha JMP134
YP_317285   348 lrklefknyIDAHVKLDHn-RQAISdNFLTKV 378 Nitrobacter winogradskyi Nb-255
ZP_01000577 338 ltdlefvtpTGGTMRLDEn-RNGIVdNFVTEV 368 Oceanicola batsensis HTCC2597
ZP_01038411 327 alrqvsfdgPRGALSIDPa-TNNIVqPIYVYE 357 Roseovarius sp. 217
YP_922061   349 airstkieaPWGPLAFDPdtGYAIApTYYYTV 380 Nocardioides sp. JS614
ZP_01746889 341 alstmtletPLGPVHLNEn-RQATGsVFINEV 371 Sagittula stellata E-37
ZP_01893265 337 tmekltidsPRGEFTFSKa-HNPIQnVYLREV 367 Marinobacter algicola DG893

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