SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing AZOBR_RS08660 AZOBR_RS08660 ABC transporter permease to proteins with known functional sites using BLASTp with E ≤ 0.001.

Or try Sites on a Tree, PaperBLAST, Conserved Domains, or compare to all protein structures

Found 2 hits to proteins with known functional sites (download)

4ymtC Crystal structure of an amino acid abc transporter complex with arginines (see paper)
33% identity, 32% coverage: 266:394/399 of query aligns to 86:214/215 of 4ymtC

query
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4ymtC

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binding arginine: N98 (≠ Y278), S99 (≠ T279), Y102 (≠ F282), E152 (≠ Q332), M156 (≠ L336), K158 (= K338), E159 (≠ N339), E159 (≠ N339)

Sites not aligning to the query:

binding arginine: 65, 66, 67

4ymwC Crystal structure of an amino acid abc transporter with histidines (see paper)
33% identity, 32% coverage: 266:394/399 of query aligns to 86:214/214 of 4ymwC

query
sites
4ymwC

P

P

E

A

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F

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A

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binding histidine: N98 (≠ Y278), Y102 (≠ F282), E152 (≠ Q332), M156 (≠ L336), E159 (≠ N339)

Sites not aligning to the query:

binding histidine: 67

Query Sequence

>AZOBR_RS08660 AZOBR_RS08660 ABC transporter permease
VASETRDTARPSAPGGVSFSLSDPTVRAVFYQVLVVGIVIAVGWFLIHNTLDNLSKRSIA
TGFGFLDREASFGIGESLIDYHPRDSYGRAFLVGVLNTLKVSIIGVVLATVLGTLIGVAR
LSSNWLIAKLASTYVEIVRNIPPLLQLFFWYALVSESMPPVRQALNPIPGVFLSQRGLFV
PVPSADPVWGTMGFALAIAVIGVIFLRRWAKARQERTGQPFPIGTASLSLLIGLPLIAYI
AGGAPTALDVPKLQGFNFVGGVVLTPEFFAILVGLVVYTAAFIAEVVRSGILAVNWGQTE
AARALGIDSGKTLRLVVLPQALRVIVPPLTSQYLNLTKNSSLALAIGYPDLVSIANTTLN
QTGQAIEGVAMIMGTYLVISLGISIFMNWYNKRIALVER

Or try a new SitesBLAST search

SitesBLAST's Database

SitesBLAST's database includes (1) SwissProt entries with experimentally-supported functional features; and (2) protein structures with bound ligands, from the BioLip database.

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory