SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing Pf1N1B4_4706 FitnessBrowser__pseudo1_N1B4:Pf1N1B4_4706 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 3 hits to proteins with known functional sites (download)

Q4U331 Delta(1)-pyrroline-2-carboxylate/Delta(1)-piperideine-2-carboxylate reductase; Pyr2C/Pip2C reductase; N-methyl-L-amino acid dehydrogenase; EC 1.5.1.21; EC 1.4.1.17 from Pseudomonas syringae pv. tomato (see paper)
62% identity, 98% coverage: 1:63/64 of query aligns to 280:342/343 of Q4U331

query
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Q4U331

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309:315 (vs. 30:36, 100% identical) binding in other chain

Sites not aligning to the query:

126:130 binding in other chain
184:186 binding in other chain
236:237 binding NADP(+)

2cwfB Crystal structure of delta1-piperideine-2-carboxylate reductase from pseudomonas syringae complexed with NADPH (see paper)
62% identity, 98% coverage: 1:63/64 of query aligns to 274:336/337 of 2cwfB

query
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2cwfB

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binding nadph dihydro-nicotinamide-adenine-dinucleotide phosphate: R303 (= R30), G306 (= G33), R308 (= R35), R309 (= R36)

Sites not aligning to the query:

active site: 48
binding nadph dihydro-nicotinamide-adenine-dinucleotide phosphate: 48, 120, 122, 123, 124, 160, 162, 177, 178, 179, 180, 230, 231

2cwhA Crystal structure of delta1-piperideine-2-carboxylate reductase from pseudomonas syringae complexed with NADPH and pyrrole-2-carboxylate (see paper)
61% identity, 97% coverage: 1:62/64 of query aligns to 271:332/332 of 2cwhA

query
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2cwhA

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binding nadph dihydro-nicotinamide-adenine-dinucleotide phosphate: R300 (= R30), G303 (= G33), R305 (= R35), R306 (= R36)

Sites not aligning to the query:

active site: 45
binding nadph dihydro-nicotinamide-adenine-dinucleotide phosphate: 45, 119, 120, 121, 148, 157, 159, 174, 175, 176, 177, 227, 228
binding pyrrole-2-carboxylate: 45, 49, 142, 157, 183, 184

Query Sequence

>Pf1N1B4_4706 FitnessBrowser__pseudo1_N1B4:Pf1N1B4_4706
VIDPSKSAGQNFAERSQELVRQMHGVGLKRLPGDRRHRQRAKAGVEGIVLDAQTLANLRE
LAGL

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