Comparing GFF340 FitnessBrowser__WCS417:GFF340 to proteins with known functional sites using BLASTp with E ≤ 0.001.
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Found 8 hits to proteins with known functional sites (download)
7yleA Rndmpx in complex with dmsp (see paper)
23% identity, 90% coverage: 34:321/321 of query aligns to 5:298/299 of 7yleA
P0AFM2 Glycine betaine/proline betaine-binding periplasmic protein; GBBP from Escherichia coli (strain K12) (see 2 papers)
30% identity, 52% coverage: 76:242/321 of query aligns to 73:223/330 of P0AFM2
Sites not aligning to the query:
1r9qA Structure analysis of prox in complex with proline betaine (see paper)
32% identity, 52% coverage: 76:242/321 of query aligns to 52:202/309 of 1r9qA
Sites not aligning to the query:
Q5LT66 Trimethylamine N-oxide-binding protein; TMAO-binding protein from Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3) (Silicibacter pomeroyi) (see paper)
23% identity, 97% coverage: 1:310/321 of query aligns to 18:332/333 of Q5LT66
Sites not aligning to the query:
4xz6A Tmox in complex with tmao (see paper)
21% identity, 88% coverage: 29:310/321 of query aligns to 1:290/291 of 4xz6A
2rinA Abc-transporter choline binding protein in complex with acetylcholine (see paper)
23% identity, 89% coverage: 29:315/321 of query aligns to 1:273/288 of 2rinA
2regA Abc-transporter choline binding protein in complex with choline (see paper)
23% identity, 89% coverage: 29:315/321 of query aligns to 3:275/290 of 2regA
Q4FL33 Trimethylamine N-oxide-binding protein; TMAO-binding protein from Pelagibacter ubique (strain HTCC1062) (see paper)
23% identity, 95% coverage: 1:305/321 of query aligns to 1:309/314 of Q4FL33
>GFF340 FitnessBrowser__WCS417:GFF340
MKMHKTLMATLLSAGVLASAGAQAAGWCESGKPVKFAGLNWESGMLLTDILQTVLEKGYD
CKTDSLPGNSITMENALSSNDIQVFAEEWVGRSEVWNKAEKAGKVVGVGAPVVGAIEGWY
VPRYVIEGDAKRKLEAKAPDLKNIADLAKYASVFKDQEEPSKGRFYNCPAGWTCELDNSE
MLKSYGLESTYTNFRPGTGPALDAAVLSSYKRGEPILFYYWSPTPLMGQVDLVKLEEKPG
VDKSVSIKVGLSKTFHEQAPELVAVLEKVNLPIDLLNQNLGRMAKERIESPKLAKIFLKE
HPEVWHAWVSDDAAKKIDAAL
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