SitesBLAST – Find functional sites

 

SitesBLAST

Comparing PP_3955 FitnessBrowser__Putida:PP_3955 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 1 hits to proteins with known functional sites (download)

8b01B Cryo-em structure of the tripartite atp-independent periplasmic (trap) transporter siaqm from photobacterium profundum in a nanodisc (see paper)
27% identity, 27% coverage: 185:367/675 of query aligns to 60:241/427 of 8b01B

query
sites
8b01B
F
 
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I

Sites not aligning to the query:

Query Sequence

>PP_3955 FitnessBrowser__Putida:PP_3955
MSDTAQGLHASTDRWPAALFAVALVFSVFQIATAAFPLISTQVLRAIHVGFLLLVVYLSY
SFVGHRRPWQPLAWLLGLAGMATAAYQWYFEGDLIQRSGELTTSDLIVGLLLIGLVFEAA
RRVMGIALPIICALFLAYGLLGQHLPGELAHRGYGLDQIVNQLAFGTEGLYGTPTYVSAT
YIYLFILFGAFLEQAGMIRLFTDFAMGLFGHRSGGPAKVSVFSSALMGTITGSGVANVVT
TGQFTIPLMKRFGYKPAFAGGVEATSSMGSQLMPPVMGAVAFIMAETINVPYAEVAKAAL
IPALLYFGSVYWMVHLEARRSHLHGLPREQCPSAWDALRQRWFLLVPLMVLVALLFSGRT
PLYSGMVGLALTAIVILGSAIILRAQKTWLRAAFWVALGILCSGFFRMGIGVILMVIAGL
AIACCFVQGGRATLHACVMALAEGARHAVPVGIACALVGVIIGVISLTGLATTFAGYILD
LGRDNLFLSLVLTMLTCLVLGMGIPTIPNYIITSSIAAPALLELGVPLIVSHMFVFYFGI
LADLTPPVALACFAAAPIAKEKGLLISFWAVRIALAGFVVPFMAVYDPALMMQGDSMGST
LYMVIKAAFAVALWGCASIGHLRAPMPWWERLLAFAAGVSLILAAPISDEVGFALGAAVL
GWHYWRTRPASGHLA

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