SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing RR42_RS05840 FitnessBrowser__Cup4G11:RR42_RS05840 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 5 hits to proteins with known functional sites (download)

8gxfB Pseudomonas flexibilis gcn5 family acetyltransferase (see paper)
34% identity, 94% coverage: 6:197/204 of query aligns to 4:186/187 of 8gxfB

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binding coenzyme a: T93 (= T104), H100 (≠ Q111), G101 (≠ R112), K109 (= K120), T129 (= T140), R135 (≠ Q146)

8gxkB Pseudomonas jinjuensis n-acetyltransferase (see paper)
36% identity, 92% coverage: 7:194/204 of query aligns to 5:183/188 of 8gxkB

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binding coenzyme a: M40 (≠ T43), T93 (= T104), W94 (= W105), H100 (≠ Q111), G101 (≠ R112), T129 (= T140), N133 (= N144), L134 (≠ H145), R135 (≠ Q146), S136 (= S147), A139 (= A150), K142 (≠ R153)

1yreB Hypothetical protein pa3270 from pseudomonas aeruginosa in complex with coa
37% identity, 92% coverage: 7:194/204 of query aligns to 5:183/187 of 1yreB

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binding coenzyme a: M40 (≠ T43), T93 (= T104), W94 (= W105), H100 (≠ Q111), G101 (≠ R112), N105 (= N116), R135 (≠ Q146), G138 (≠ T149)

6c37A Mycobacterium smegmatis rimj in complex with coa-disulfide
30% identity, 72% coverage: 57:203/204 of query aligns to 68:206/209 of 6c37A

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binding [[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3~{R})-4-[[3-[2-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyldisulfanyl]ethylamino]-3-oxidanylidene-propyl]amino]-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-butyl] hydrogen phosphate: G110 (= G102), Y111 (≠ H103), W112 (= W105), V113 (≠ H106), T118 (≠ Q111), G119 (≠ R112), G121 (≠ A114), A123 (≠ N116), T124 (= T117), T146 (≠ R139), N151 (= N144), T152 (≠ H145), P153 (≠ Q146), S154 (= S147), V157 (≠ A150), H160 (≠ R153), R205 (= R202)

Sites not aligning to the query:

binding [[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3~{R})-4-[[3-[2-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyldisulfanyl]ethylamino]-3-oxidanylidene-propyl]amino]-2,2-dimethyl-3-oxidanyl-4-oxidanylidene-butyl] hydrogen phosphate: 42

6c32A Mycobacterium smegmatis rimj with accoa
30% identity, 72% coverage: 57:203/204 of query aligns to 68:206/209 of 6c32A

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binding acetyl coenzyme *a: G110 (= G102), Y111 (≠ H103), W112 (= W105), V113 (≠ H106), T118 (≠ Q111), G119 (≠ R112), G121 (≠ A114), A123 (≠ N116), T124 (= T117), T146 (≠ R139), N151 (= N144), T152 (≠ H145), P153 (≠ Q146), S154 (= S147), V157 (≠ A150), H160 (≠ R153), R205 (= R202)

Query Sequence

>RR42_RS05840 FitnessBrowser__Cup4G11:RR42_RS05840
MARFIEPVTLRGQHALLEPLRPEHEAEVQAAVADGELWKLWYTSVPAPDQVRAWTDTALQ
MREQQGAMPFVIREVRDGVPGAVVGATRYFNVDSANRRLEIGHTWHAQRVQRSAVNTECK
LMLLSHAFEQLACIAVEFRTHWMNHQSRTAIARLGAKQDGVLRNHQRMPDGSLRDTVVFS
IIASEWPTVKRHLQYRLDLPGRAS

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