Comparing GFF4004 FitnessBrowser__psRCH2:GFF4004 to proteins with known functional sites using BLASTp with E ≤ 0.001.
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Found 3 hits to proteins with known functional sites (download)
Q6LX42 Sodium/alanine symporter AgcS; Alanine permease; Alanine/glycine:cation symporter from Methanococcus maripaludis (strain S2 / LL) (see paper)
37% identity, 92% coverage: 1:436/473 of query aligns to 6:446/453 of Q6LX42
6csfM Crystal structure of sodium/alanine symporter agcs with d-alanine bound (see paper)
37% identity, 90% coverage: 10:436/473 of query aligns to 1:426/431 of 6csfM
6cseM Crystal structure of sodium/alanine symporter agcs with l-alanine bound (see paper)
37% identity, 90% coverage: 10:436/473 of query aligns to 1:426/431 of 6cseM
>GFF4004 FitnessBrowser__psRCH2:GFF4004
MLDLLNDLIWSKLLIVMLIGLGLLFTIRSGFVQFRYFGNMFTIFGHAFERQPGQLSSFQA
LMLSVAGRVGAGNIAGVSVAIMLGGPGAIFWMWVVALVGMATSYFECSLAQLYKRREPDG
TYRGGPAFYIQHGLGQRWLGIVVSILLLMTFGFGFNAVQSFTVASSLHDTFGVPTVASGI
ALTLVIAGIIFGGIRRIAKWADVLVPVMAFSYLAMALFVIGSNFSAIPETFGLIFRSAFG
LEQAFAGGIGAAILMGVKRGLFSNEAGLGSAPNVAAVAEVKHPVAQGIVQSLSVFIDTII
LCSCTALIILLSGVYEPGMDQAGVVLTQTAVAAVVGEWGRVFVSVALLLFVFTTLIYNYY
LGENALGFFTEKRMPVVIYRILVVILVLWGSVQDLGTVFAFADVTMGLLAIANLIAVALL
FKVGLRLMRDYDRQIRAGIEQPVLDPKDFADLDLDPAVWKANMPAAPDATERR
Or try a new SitesBLAST search
SitesBLAST's database includes (1) SwissProt entries with experimentally-supported functional features; and (2) protein structures with bound ligands, from the BioLip database.
Lawrence Berkeley National Laboratory