SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing SMc00926 FitnessBrowser__Smeli:SMc00926 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 6 hits to proteins with known functional sites (download)

2wdrB E. Coli succinate:quinone oxidoreductase (sqr) with pentachlorophenol bound (see paper)
24% identity, 22% coverage: 21:116/443 of query aligns to 132:233/238 of 2wdrB

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2wdrB

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binding fe3-s4 cluster: C159 (= C48), P172 (= P61), C206 (= C89), S208 (= S91), I209 (≠ C92), M210 (≠ L93), N211 (≠ S94), C212 (= C95), T223 (≠ M106)
binding pentachlorophenol: P160 (= P49), W164 (≠ V53), I209 (≠ C92)
binding iron/sulfur cluster: C149 (= C38), I150 (≠ V39), L151 (≠ H40), C152 (= C41), C155 (= C44), A173 (≠ R62), C216 (= C99), P217 (= P100)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 55, 56, 60, 61, 63, 75

2wdqB E. Coli succinate:quinone oxidoreductase (sqr) with carboxin bound (see paper)
24% identity, 22% coverage: 21:116/443 of query aligns to 132:233/238 of 2wdqB

query
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2wdqB

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binding 2-methyl-n-phenyl-5,6-dihydro-1,4-oxathiine-3-carboxamide: P160 (= P49), W164 (≠ V53), H207 (≠ L90)
binding fe3-s4 cluster: C159 (= C48), P172 (= P61), C206 (= C89), H207 (≠ L90), S208 (= S91), I209 (≠ C92), M210 (≠ L93), N211 (≠ S94), C212 (= C95), T223 (≠ M106)
binding iron/sulfur cluster: C149 (= C38), I150 (≠ V39), L151 (≠ H40), C152 (= C41), A153 (≠ G42), C155 (= C44), A173 (≠ R62), C216 (= C99), P217 (= P100)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 55, 56, 58, 60, 61, 63, 75

2aczB Complex ii (succinate dehydrogenase) from e. Coli with atpenin a5 inhibitor co-crystallized at the ubiquinone binding site (see paper)
24% identity, 22% coverage: 21:116/443 of query aligns to 132:233/238 of 2aczB

query
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2aczB

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binding 3-[(2s,4s,5r)-5,6-dichloro-2,4-dimethyl-1-oxohexyl]-4-hydroxy-5,6-dimethoxy-2(1h)-pyridinone: P160 (= P49), W164 (≠ V53), H207 (≠ L90), I209 (≠ C92)
binding fe3-s4 cluster: C159 (= C48), P172 (= P61), C206 (= C89), S208 (= S91), M210 (≠ L93), C212 (= C95), T223 (≠ M106)
binding iron/sulfur cluster: C149 (= C38), I150 (≠ V39), C152 (= C41), A153 (≠ G42), C155 (= C44), C216 (= C99), L220 (≠ V103)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 53, 54, 55, 56, 58, 59, 60, 63, 75

1nenB Complex ii (succinate dehydrogenase) from e. Coli with dinitrophenol-17 inhibitor co-crystallized at the ubiquinone binding site (see paper)
24% identity, 22% coverage: 21:116/443 of query aligns to 132:233/238 of 1nenB

query
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1nenB

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binding calcium ion: D187 (= D79), T190 (= T82)
binding 2-[1-methylhexyl]-4,6-dinitrophenol: P160 (= P49), W164 (≠ V53), I209 (≠ C92)
binding fe3-s4 cluster: C159 (= C48), P172 (= P61), C206 (= C89), S208 (= S91), I209 (≠ C92), M210 (≠ L93), C212 (= C95), T223 (≠ M106)
binding iron/sulfur cluster: C149 (= C38), I150 (≠ V39), L151 (≠ H40), C152 (= C41), A153 (≠ G42), C155 (= C44), C216 (= C99), L220 (≠ V103)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 54, 55, 56, 58, 59, 60, 61, 63, 75

1nekB Complex ii (succinate dehydrogenase) from e. Coli with ubiquinone bound (see paper)
24% identity, 22% coverage: 21:116/443 of query aligns to 132:233/238 of 1nekB

query
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1nekB

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binding calcium ion: D187 (= D79), T190 (= T82)
binding fe3-s4 cluster: C159 (= C48), P172 (= P61), C206 (= C89), S208 (= S91), I209 (≠ C92), M210 (≠ L93), C212 (= C95), T223 (≠ M106)
binding iron/sulfur cluster: C149 (= C38), I150 (≠ V39), C152 (= C41), A153 (≠ G42), C154 (≠ F43), C155 (= C44), A173 (≠ R62), C216 (= C99), L220 (≠ V103)
binding ubiquinone-2: P160 (= P49), W164 (≠ V53), I209 (≠ C92)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 54, 55, 56, 58, 59, 60, 61, 63, 75

P07014 Succinate dehydrogenase iron-sulfur subunit; EC 1.3.5.1 from Escherichia coli (strain K12) (see paper)
24% identity, 22% coverage: 21:116/443 of query aligns to 132:233/238 of P07014

query
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P07014

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W164 (≠ V53) binding

Query Sequence

>SMc00926 FitnessBrowser__Smeli:SMc00926
MIQRPQGATWSTRLQTNFSPEQLADPHVAESETILRKCVHCGFCTATCPTYVVLGDELDS
PRGRIYLIKDMLENGRAADSETVTHIDRCLSCLSCLTTCPSGVDYMHLVDHARAHIEKTY
KRPFKDRLARSVIAATLPYPSRFRLALGAAGLARPLAGLLKRVPFLRTLGVMLDLAPSAL
PAARGAKPAVYAAKGTPRARVALLTGCAQPVLRPEINDATIRLLTGQGVEVVVSAGEGCC
GALVHHMGRDEQALQAGRHNIDVWLKAAEEDGLDAIIITASGCGTTIKDYGHMLRLDPAY
AEKAARVSALAKDVTEYLATLDLPEQGARNLTVAYHSACSMQHGQKITSAPKQLLKRAGF
SVREPAEGHLCCGSAGTYNILQPEISAKLKARKVRNIEATKPEVIATGNIGCITQIASGT
EIPILHTVELLDWAYGGPKPAGL

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