SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_013706282.1 NCBI__GCF_000195295.1:WP_013706282.1 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)

5t61L Tungsten formylmethanofuran dehydrogenase subunit fwdF (see paper)
36% identity, 45% coverage: 69:131/140 of query aligns to 222:285/348 of 5t61L

query
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5t61L

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binding iron/sulfur cluster: C238 (= C85), V239 (≠ Y86), N240 (≠ Q87), C241 (= C88), G242 (= G89), C244 (= C91), C248 (= C95), P249 (= P96), C270 (= C116), A272 (= A118), C273 (= C119), E274 (= E120), C276 (= C122), C280 (= C126), P281 (= P127), V284 (≠ A130)

Sites not aligning to the query:

binding iron/sulfur cluster: 30, 31, 32, 33, 34, 36, 40, 41, 70, 71, 72, 73, 74, 76, 80, 85, 114, 117, 118, 120, 124, 129, 146, 153, 156, 159, 163, 164, 168, 186, 193, 195, 196, 197, 199, 203, 204, 208, 212, 215, 307, 308, 309, 310, 311, 313, 317

8a8oD Paps reductase from methanothermococcus thermolithotrophicus refined to 1.45 a (see paper)
38% identity, 40% coverage: 78:133/140 of query aligns to 2:57/102 of 8a8oD

query
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8a8oD

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binding iron/sulfur cluster: I2 (≠ V78), C9 (= C85), I10 (≠ Y86), G11 (≠ Q87), C12 (= C88), G13 (= G89), C15 (= C91), C19 (= C95), P20 (= P96), S32 (≠ E108), C40 (= C116), W41 (≠ S117), D42 (≠ A118), C43 (= C119), A44 (≠ E120), C46 (= C122), C50 (= C126), I55 (≠ M131)

7p8nB Tmhydabc- t. Maritima hydrogenase with bridge closed (see paper)
37% identity, 37% coverage: 81:132/140 of query aligns to 563:613/613 of 7p8nB

query
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7p8nB

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binding iron/sulfur cluster: C567 (= C85), C570 (= C88), G571 (= G89), C573 (= C91), C577 (= C95), Y590 (≠ I109), I592 (≠ F111), C597 (= C116), K599 (≠ A118), C600 (= C119), G601 (≠ E120), C603 (= C122), C607 (= C126)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 31, 33, 34, 36, 67, 68, 69, 70, 71
binding flavin mononucleotide: 185, 186, 187, 213, 215, 216, 217, 301, 304, 305, 306, 340, 341, 521, 522
binding iron/sulfur cluster: 320, 473, 474, 475, 476, 477, 480, 519, 520, 522, 523, 560
binding zinc ion: 457, 544, 549, 554

Query Sequence

>WP_013706282.1 NCBI__GCF_000195295.1:WP_013706282.1
MHAEILVLHFPKDIVDRPIIYRLVKDFDLEFNLLKATISPRREGIIVLELRGHPKNFRQG
VKYLKDSGVKVQRVASDVRRNEERCYQCGVCTAVCPTGALYVKRPEMEIVFDPSKCSACE
LCCPVCPARAMEVEINRNVV

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