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 
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
View PSSM: cd06268
Aligned: 336 rows
Threshold Bit Score: 54.3495
Threshold Setting Gi: 149241821
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:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1Z15_A         4 KVAVVGamsg-------------pvaqYGDQEFTGAEQAVadinakg--------------gikgnkLQIVKYDDac--- 53
1Z18_A         4 KVAVVGamsg-------------pvaqYGDQEFTGAEQAVadinakg--------------gikgnkLQIVKYDDac--- 53
gi 68349568   41 RIALLNsp-----------------gpLAPSILRGASMGIaeaesla--------------qmfgkkIVLALPSVpg--- 86
gi 70729578   16 ASVLLPlaas-------------qageEPLQVRIGYLGYRpdpgpllsniip----epadaglqgaqLAIVDSNStgrfl 78
gi 71907072   14 IIAHTApttg-------------rfslHAESDRRGAEMAIdefnarg--------------gvlgreIVLVSRDPgl--- 63
gi 89092862   10 SALLLAgfsls------------tsayANLEININYLNQVmdngpvlsnilp----epedsglrgaeLGIKDSNTtgrfl 73
gi 109898177  19 LTWVLStvcillwn------ghsvaknVPLSYEVNYLKLLnapvatfsninv----lpensglpgaqLAVADANStgkfi 88
gi 110634950  20 LAVALPsfsqeaapsagqksaspqepaQATKMLMGYVELAddprydedyayaqvpvrplgrpfdataVGIADAAQigkvi 99
gi 114763930   3 IIGLAAvlslsl----------gaaaaSETKVRIGYLTVDqpappvlsnldp----apedlglagaqLGIEDNATtgrfl 68
gi 114772389  12 LCPILAitlfisvv------fpvfakiEPLKVNITYINQVhehdyytnpllv----apadsgvagieLGIEDSNTtgkfl 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                     ##                 
1Z15_A        54 ------------dpKQAVAVANKVVNd-gIKYVIGhlcssstq--pasdiyedEGILMITPAAtapelta-rgyqlilRT 117
1Z18_A        54 ------------dpKQAVAVANKVVNd-gIKYVIGhlcssstq--pasdiyedEGILMITPAAtapelta-rgyqlilRT 117
gi 68349568   87 -------------pEWVASVASVLVKe-gVSVLVGggdeaaae--alrevareGKALFLNVGSasdrlrtercdrhtfHV 150
gi 70729578   79 kqqfqldsasvdspGALLQAAKAQHDq-gLRLFVVnapaasl----relsaalPDSLLFNAGSpddrlrssqclgnvlHS 153
gi 71907072   64 ------------dpKRAASVAEELITqtkVGFIVGalasgvaa--smsavcqkYGVIYINTNSsapsesvenahrtkfAF 129
gi 89092862   74 kqkyslntyqsdaaTDVIAEAIRLYEs-gQRFFVLntssstln---kiekslgDDAVIFNAGSaddqlrkescnagvfHT 149
gi 109898177  89 gqsftlsqfelhapQEVLKRIDQQFKk-gVFVFLVsadsgvfe--tidkwaknKPVLVFNVSEpaddmrhtlclssvlHT 165
gi 110634950 100 gvdfaverkagenvEELVTTVQGWSDq-gIGFVLAdlpaaqll--qladalrdKDVMIFNLAAredalrgencranlvHV 176
gi 114763930  69 nqtytmdetrvpegGDALAAARALLAs--SPFLVLdapaatlt--avadlpeaEGALLFNASApdsalrdadcranllHT 144
gi 114772389  82 gqqfsfltqtipaaHSSSPIRWSEYKi-eNQLLLVdldsetlqaliahnnsleQPALIINIANrdntlrqricsanlfHT 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1Z15_A       118 TGLDsdQGPTAAKYILekvkpqRIAIVHDKQq---yGEGLARAVQDGLkkgnanvvFFDGItage----kdfSTLVARLK 190
1Z18_A       118 TGLDsdQGPTAAKYILekvkpqRIAIVHDKQq---yGEGLARAVQDGLkkgnanvvFFDGItage----kdfSTLVARLK 190
gi 68349568  151 HASVqmHVGAAGFWLIeekrlrRWAVLSQSDelrraVGALAEARGATVvedvpvvsGTTDWrptlerlraaaPEALWLGL 230
gi 70729578  154 LPGRamLADALVQFMVlrk-wqRALLIVGQTe---dDRAYADALRRATqrfgvnivAEKPWtf--------dNDQRRSAQ 221
gi 71907072  130 DAHGanFNRALLKYALanrkskRVLLLTEDNe---fGRSNALAMRPYIaeyggtvvGEVVTletl----pdpVEILRKVA 202
gi 89092862  150 LPSRamLTDALAQWLKakr-ldEVLMINGGTe---dDQAYASAFKRAAkrfgikivAEKQWdf--------dSDLRRTAQ 217
gi 109898177 166 VPSYrmKSDALAQWLVakr-lsKILLIKGKGv---aDEHIAYAFSLAAkrfglniiEQKVWdf--------nTDLRRSTQ 233
gi 110634950 177 IPSYamVADALVQYLSfrn-wrNILVLQGPLd---gDAQMVAVVQRAAqrfgarivEVRPFql--------tNDPRRREQ 244
gi 114763930 145 IPSDamRTDALAQFLVqrr-wtDVALISGAHp---rDTAFADALRASIakfrlklvGESDWvf--------dADMRRNAS 212
gi 114772389 161 TPSHaqITDALGQWLLskr-lnNILLINGDTp---gDLAWINSFKRTAkrykinisAEKKWtf--------dTDLRRTVS 228
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1Z15_A       191 KenidFVYYGgyhpeMGQILRQARAAglkTQFMGPegvanvslsniagesaegLLVTKPknydqvpankpiv-----dai 265
1Z18_A       191 KenidFVYYGgyhpeMGQILRQARAAglkTQFMGPegvanvslsniagesaegLLVTKPknydqvpankpiv-----dai 265
gi 68349568  231 RaaevPGFLQq----YAQANLAGELIgitPDVIGLpnvd----------paglSGVWPVmwhhtlekysardl---nsry 293
gi 70729578  222 Ad--mPLFTQt---aEYDVVLVADERgdfGEYLPYqtwyp--------rpvagTQGLTPtgwhksvetfgaaql--qkrf 286
gi 71907072  203 AtpadVVAVSisgdnQIKLFSQIDPKvleKQFWIVgevdweel--ypapgtprPLFGTTwawnlktpgtadfvaryrkry 280
gi 89092862  218 Ke--lPLFTQt---kEYDVVFVADERgdfGEYVLYntwyp--------rpvvgTQGLSPvawhrvveqwgaaql--qkrf 282
gi 109898177 234 Qe--iPLFTQts--rPYDVVFVADAHkdfAEFIPYntylp--------rpvigSAGLEAlawhrvieqwgaaql--qsrf 299
gi 110634950 245 Sn--vALVTAn---aDYDVVLVADTDgefARYVPFatqfp--------rpvvgAAGLVPsawhwswerhgapql--nsrf 309
gi 114763930 213 Ae--vPLFTQgf--kEHDVLLLADEIgdfGRYVVYntwlp--------rpvagSEELVPqawapvveqwgaaql--qsrf 278
gi 114772389 229 Qd--iPLFTQta--rPYDVVVVADMYqqfGQYVPYntyyp--------rpvigTAGLVAdtwhpsieqwgakql--qnrf 294
                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
Feature 1                                                                                 
1Z15_A       266 kakkqdpsgaFVWTTYAALQSLQaglnqsddpaeiakylk------ansvdtvmgpltwdekGDLKgfEFGVF 332
1Z18_A       266 kakkqdpsgaFVWTTYAALQSLQaglnqsddpaeiakylk------ansvdtvmgpltwdekGDLKgfEFGVF 332
gi 68349568  294 rgrfvqpldaASWSAWAAIKMVGeallragatprllleyfe---sdppfdghkgrpltfrkqDHQLrqPMYLA 363
gi 70729578  287 eaqagrwmndRDFAAWMAVRSVAsavsklrqadpralqtlll-sdqlpldgfkgrklsyrpwNGELrqPIPLV 358
gi 71907072  281 ghtklnypgdVTHAAYLATKALLvaieqagstdshaviqqlesykatakermqdaaafmdpnSHHVq-QSIYI 352
gi 89092862  283 nkhakrwmtsEDYAAWAGVRSVSeavtrtkssdskiveeyir-sdnfelagfkgrklnyrewNGQLrqPIPLV 354
gi 109898177 300 rkmaardmneLDFSAYLAVRSVAqaaqqtgsgkpaelidyih-sddfelaaykgrklsfrswNGQLrmPLALV 371
gi 110634950 310 eraagrrmgsEDWAAWTAIKAVVqsvlrskstefqpvrdyll-gerlnldgfkgnplsvrswDHQIrqPILLS 381
gi 114763930 279 eelsgremqpEDYAAWAAIRSIGeavtrtgsaeaatlrdyif-sdafelagfkgsplsfrgwNGQLrqPIPIV 350
gi 114772389 295 ktlhqrymehADFDAYVAVRAIAyavqqikgvniealatfmr-seqfqlaaykgrkltfrdfNGQLrmPIELT 366

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