1Z15,1QNL,1QO0,1Z18,2H4A,2LIV,2QH8


Conserved Protein Domain Family
PBP1_ABC_transporter_LIVBP_like

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cd06268: PBP1_ABC_transporter_LIVBP_like (this model, PSSM-Id:107263 is obsolete and has been replaced by 380492)
Click on image for an interactive view with Cn3D
Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily
Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC-type Leucine-Isoleucine-Valine-Binding Proteins (LIVBP), which are homologous to the aliphatic amidase transcriptional repressor, AmiC, of Pseudomonas aeruginosa. The uncharacterized periplasmic components of various ABC-type transport systems are included in this group.
Statistics
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PSSM-Id: 107263
Aligned: 336 rows
Threshold Bit Score: 54.3495
Created: 7-Nov-2006
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
ligand binding
Conserved site includes 2 residues -Click on image for an interactive view with Cn3D
Feature 1:ligand binding site [chemical binding site]
Evidence:
  • Structure:1Z18; Escherichia coli ABC-type Leucine-Isoleucine-Valine-Binding Protein (LIVBP) binds valine, contacts calculated at 3.5 A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                       
1Z15_A        4 KVAVVGamsg-------------pvaqYGDQEFTGAEQAVadinakg--------------gikgnkLQIVKYDDac--- 53  Escherichia coli
1Z18_A        4 KVAVVGamsg-------------pvaqYGDQEFTGAEQAVadinakg--------------gikgnkLQIVKYDDac--- 53  Escherichia coli
AAY96671     41 RIALLNsp-----------------gpLAPSILRGASMGIaeaesla--------------qmfgkkIVLALPSVpg--- 86  uncultured bacte...
YP_259316    16 ASVLLPlaas-------------qageEPLQVRIGYLGYRpdpgpllsniip----epadaglqgaqLAIVDSNStgrfl 78  Pseudomonas fluo...
YP_284659    14 IIAHTApttg-------------rfslHAESDRRGAEMAIdefnarg--------------gvlgreIVLVSRDPgl--- 63  Dechloromonas ar...
ZP_01165814  10 SALLLAgfsls------------tsayANLEININYLNQVmdngpvlsnilp----epedsglrgaeLGIKDSNTtgrfl 73  Oceanospirillum ...
YP_661432    19 LTWVLStvcillwn------ghsvaknVPLSYEVNYLKLLnapvatfsninv----lpensglpgaqLAVADANStgkfi 88  Pseudoalteromona...
YP_675158    20 LAVALPsfsqeaapsagqksaspqepaQATKMLMGYVELAddprydedyayaqvpvrplgrpfdataVGIADAAQigkvi 99  Mesorhizobium sp...
ZP_01443171   3 IIGLAAvlslsl----------gaaaaSETKVRIGYLTVDqpappvlsnldp----apedlglagaqLGIEDNATtgrfl 68  Roseovarius sp. ...
ZP_01449764  12 LCPILAitlfisvv------fpvfakiEPLKVNITYINQVhehdyytnpllv----apadsgvagieLGIEDSNTtgkfl 81  alpha proteobact...
Feature 1                                                                    ##                 
1Z15_A       54 ------------dpKQAVAVANKVVNd-gIKYVIGhlcssstq--pasdiyedEGILMITPAAtapelta-rgyqlilRT 117 Escherichia coli
1Z18_A       54 ------------dpKQAVAVANKVVNd-gIKYVIGhlcssstq--pasdiyedEGILMITPAAtapelta-rgyqlilRT 117 Escherichia coli
AAY96671     87 -------------pEWVASVASVLVKe-gVSVLVGggdeaaae--alrevareGKALFLNVGSasdrlrtercdrhtfHV 150 uncultured bacte...
YP_259316    79 kqqfqldsasvdspGALLQAAKAQHDq-gLRLFVVnapaasl----relsaalPDSLLFNAGSpddrlrssqclgnvlHS 153 Pseudomonas fluo...
YP_284659    64 ------------dpKRAASVAEELITqtkVGFIVGalasgvaa--smsavcqkYGVIYINTNSsapsesvenahrtkfAF 129 Dechloromonas ar...
ZP_01165814  74 kqkyslntyqsdaaTDVIAEAIRLYEs-gQRFFVLntssstln---kiekslgDDAVIFNAGSaddqlrkescnagvfHT 149 Oceanospirillum ...
YP_661432    89 gqsftlsqfelhapQEVLKRIDQQFKk-gVFVFLVsadsgvfe--tidkwaknKPVLVFNVSEpaddmrhtlclssvlHT 165 Pseudoalteromona...
YP_675158   100 gvdfaverkagenvEELVTTVQGWSDq-gIGFVLAdlpaaqll--qladalrdKDVMIFNLAAredalrgencranlvHV 176 Mesorhizobium sp...
ZP_01443171  69 nqtytmdetrvpegGDALAAARALLAs--SPFLVLdapaatlt--avadlpeaEGALLFNASApdsalrdadcranllHT 144 Roseovarius sp. ...
ZP_01449764  82 gqqfsfltqtipaaHSSSPIRWSEYKi-eNQLLLVdldsetlqaliahnnsleQPALIINIANrdntlrqricsanlfHT 160 alpha proteobact...
Feature 1                                                                                       
1Z15_A      118 TGLDsdQGPTAAKYILekvkpqRIAIVHDKQq---yGEGLARAVQDGLkkgnanvvFFDGItage----kdfSTLVARLK 190 Escherichia coli
1Z18_A      118 TGLDsdQGPTAAKYILekvkpqRIAIVHDKQq---yGEGLARAVQDGLkkgnanvvFFDGItage----kdfSTLVARLK 190 Escherichia coli
AAY96671    151 HASVqmHVGAAGFWLIeekrlrRWAVLSQSDelrraVGALAEARGATVvedvpvvsGTTDWrptlerlraaaPEALWLGL 230 uncultured bacte...
YP_259316   154 LPGRamLADALVQFMVlrk-wqRALLIVGQTe---dDRAYADALRRATqrfgvnivAEKPWtf--------dNDQRRSAQ 221 Pseudomonas fluo...
YP_284659   130 DAHGanFNRALLKYALanrkskRVLLLTEDNe---fGRSNALAMRPYIaeyggtvvGEVVTletl----pdpVEILRKVA 202 Dechloromonas ar...
ZP_01165814 150 LPSRamLTDALAQWLKakr-ldEVLMINGGTe---dDQAYASAFKRAAkrfgikivAEKQWdf--------dSDLRRTAQ 217 Oceanospirillum ...
YP_661432   166 VPSYrmKSDALAQWLVakr-lsKILLIKGKGv---aDEHIAYAFSLAAkrfglniiEQKVWdf--------nTDLRRSTQ 233 Pseudoalteromona...
YP_675158   177 IPSYamVADALVQYLSfrn-wrNILVLQGPLd---gDAQMVAVVQRAAqrfgarivEVRPFql--------tNDPRRREQ 244 Mesorhizobium sp...
ZP_01443171 145 IPSDamRTDALAQFLVqrr-wtDVALISGAHp---rDTAFADALRASIakfrlklvGESDWvf--------dADMRRNAS 212 Roseovarius sp. ...
ZP_01449764 161 TPSHaqITDALGQWLLskr-lnNILLINGDTp---gDLAWINSFKRTAkrykinisAEKKWtf--------dTDLRRTVS 228 alpha proteobact...
Feature 1                                                                                       
1Z15_A      191 KenidFVYYGgyhpeMGQILRQARAAglkTQFMGPegvanvslsniagesaegLLVTKPknydqvpankpiv-----dai 265 Escherichia coli
1Z18_A      191 KenidFVYYGgyhpeMGQILRQARAAglkTQFMGPegvanvslsniagesaegLLVTKPknydqvpankpiv-----dai 265 Escherichia coli
AAY96671    231 RaaevPGFLQq----YAQANLAGELIgitPDVIGLpnvd----------paglSGVWPVmwhhtlekysardl---nsry 293 uncultured bacte...
YP_259316   222 Ad--mPLFTQt---aEYDVVLVADERgdfGEYLPYqtwyp--------rpvagTQGLTPtgwhksvetfgaaql--qkrf 286 Pseudomonas fluo...
YP_284659   203 AtpadVVAVSisgdnQIKLFSQIDPKvleKQFWIVgevdweel--ypapgtprPLFGTTwawnlktpgtadfvaryrkry 280 Dechloromonas ar...
ZP_01165814 218 Ke--lPLFTQt---kEYDVVFVADERgdfGEYVLYntwyp--------rpvvgTQGLSPvawhrvveqwgaaql--qkrf 282 Oceanospirillum ...
YP_661432   234 Qe--iPLFTQts--rPYDVVFVADAHkdfAEFIPYntylp--------rpvigSAGLEAlawhrvieqwgaaql--qsrf 299 Pseudoalteromona...
YP_675158   245 Sn--vALVTAn---aDYDVVLVADTDgefARYVPFatqfp--------rpvvgAAGLVPsawhwswerhgapql--nsrf 309 Mesorhizobium sp...
ZP_01443171 213 Ae--vPLFTQgf--kEHDVLLLADEIgdfGRYVVYntwlp--------rpvagSEELVPqawapvveqwgaaql--qsrf 278 Roseovarius sp. ...
ZP_01449764 229 Qd--iPLFTQta--rPYDVVVVADMYqqfGQYVPYntyyp--------rpvigTAGLVAdtwhpsieqwgakql--qnrf 294 alpha proteobact...
Feature 1                                                                                
1Z15_A      266 kakkqdpsgaFVWTTYAALQSLQaglnqsddpaeiakylk------ansvdtvmgpltwdekGDLKgfEFGVF 332 Escherichia coli
1Z18_A      266 kakkqdpsgaFVWTTYAALQSLQaglnqsddpaeiakylk------ansvdtvmgpltwdekGDLKgfEFGVF 332 Escherichia coli
AAY96671    294 rgrfvqpldaASWSAWAAIKMVGeallragatprllleyfe---sdppfdghkgrpltfrkqDHQLrqPMYLA 363 uncultured bacterium BA...
YP_259316   287 eaqagrwmndRDFAAWMAVRSVAsavsklrqadpralqtlll-sdqlpldgfkgrklsyrpwNGELrqPIPLV 358 Pseudomonas fluorescens...
YP_284659   281 ghtklnypgdVTHAAYLATKALLvaieqagstdshaviqqlesykatakermqdaaafmdpnSHHVq-QSIYI 352 Dechloromonas aromatica...
ZP_01165814 283 nkhakrwmtsEDYAAWAGVRSVSeavtrtkssdskiveeyir-sdnfelagfkgrklnyrewNGQLrqPIPLV 354 Oceanospirillum sp. MED92
YP_661432   300 rkmaardmneLDFSAYLAVRSVAqaaqqtgsgkpaelidyih-sddfelaaykgrklsfrswNGQLrmPLALV 371 Pseudoalteromonas atlan...
YP_675158   310 eraagrrmgsEDWAAWTAIKAVVqsvlrskstefqpvrdyll-gerlnldgfkgnplsvrswDHQIrqPILLS 381 Mesorhizobium sp. BNC1
ZP_01443171 279 eelsgremqpEDYAAWAAIRSIGeavtrtgsaeaatlrdyif-sdafelagfkgsplsfrgwNGQLrqPIPIV 350 Roseovarius sp. HTCC2601
ZP_01449764 295 ktlhqrymehADFDAYVAVRAIAyavqqikgvniealatfmr-seqfqlaaykgrkltfrdfNGQLrmPIELT 366 alpha proteobacterium H...

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