SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_093394837.1 NCBI__GCF_900114975.1:WP_093394837.1 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 6 hits to proteins with known functional sites (download)

6n2oC 2-oxoglutarate:ferredoxin oxidoreductase from magnetococcus marinus with 2-oxoglutarate, coenzyme a and succinyl-coa bound (see paper)
25% identity, 29% coverage: 6:180/598 of query aligns to 201:378/572 of 6n2oC

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6n2oC

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binding succinyl-coenzyme a: T226 (= T31), R302 (≠ D112)
binding thiamine diphosphate: P224 (= P29), I225 (≠ G30), E252 (= E60)

Sites not aligning to the query:

binding succinyl-coenzyme a: 14, 16, 17, 18, 19, 41, 43, 44, 45, 128, 131, 157, 168

6n2oA 2-oxoglutarate:ferredoxin oxidoreductase from magnetococcus marinus with 2-oxoglutarate, coenzyme a and succinyl-coa bound (see paper)
25% identity, 29% coverage: 6:180/598 of query aligns to 201:378/572 of 6n2oA

query
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6n2oA

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binding 2-oxoglutaric acid: T226 (= T31), R302 (≠ D112)
binding thiamine diphosphate: Y223 (= Y28), P224 (= P29), I225 (≠ G30), E252 (= E60)

Sites not aligning to the query:

binding coenzyme a: 14, 16, 19, 131, 156

6n2nA Crystal structure of 2-oxoglutarate:ferredoxin oxidoreductase from magnetococcus marinus (see paper)
25% identity, 29% coverage: 6:180/598 of query aligns to 201:378/572 of 6n2nA

query
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6n2nA

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binding thiamine diphosphate: Y223 (= Y28), P224 (= P29), I225 (≠ G30), E252 (= E60)

7q4vF Electron bifurcating hydrogenase - hydabc from a. Woodii (see paper)
40% identity, 9% coverage: 542:593/598 of query aligns to 420:470/470 of 7q4vF

query
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7q4vF

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binding iron/sulfur cluster: C422 (= C544), G424 (= G546), C425 (= C547), G426 (≠ Q548), I427 (≠ L549), C428 (= C550), C432 (= C556), P433 (= P557), I437 (≠ S561), Y445 (≠ V568), C452 (= C575), K454 (≠ G577), C455 (= C578), G456 (= G579), A457 (≠ V580), C458 (= C581), C462 (= C585), P463 (= P586), I467 (≠ L590)

Sites not aligning to the query:

binding flavin mononucleotide: 37, 39, 67, 158, 159, 160, 375
binding nicotinamide-adenine-dinucleotide: 40, 43, 48, 177, 180, 297
binding iron/sulfur cluster: 327, 328, 329, 330, 331, 334, 373, 374, 415, 417
binding zinc ion: 311, 398, 404, 409

7q4vB Electron bifurcating hydrogenase - hydabc from a. Woodii (see paper)
40% identity, 9% coverage: 542:593/598 of query aligns to 549:599/599 of 7q4vB

query
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7q4vB

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binding iron/sulfur cluster: C551 (= C544), K552 (≠ T545), G553 (= G546), C554 (= C547), G555 (≠ Q548), I556 (≠ L549), C557 (= C550), C561 (= C556), P562 (= P557), Y574 (≠ V568), C581 (= C575), K583 (≠ G577), C584 (= C578), G585 (= G579), A586 (≠ V580), C587 (= C581), C591 (= C585), F593 (≠ Y587), S595 (≠ G589)

Sites not aligning to the query:

binding fe2/s2 (inorganic) cluster: 11, 16, 48, 49, 51, 52
binding flavin mononucleotide: 166, 168, 196, 198, 284, 287, 288, 289, 324
binding iron/sulfur cluster: 457, 458, 459, 460, 463, 503, 506, 544
binding zinc ion: 440, 527, 533

8a5eB Cryo-em structure of the electron bifurcating fe-fe hydrogenase hydabc complex from acetobacterium woodii in the reduced state (see paper)
40% identity, 9% coverage: 542:593/598 of query aligns to 397:447/447 of 8a5eB

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8a5eB

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binding iron/sulfur cluster: C399 (= C544), G401 (= G546), C402 (= C547), G403 (≠ Q548), C405 (= C550), C409 (= C556), P410 (= P557), I414 (≠ S561), C429 (= C575), K431 (≠ G577), C432 (= C578), G433 (= G579), C435 (= C581), C439 (= C585), P440 (= P586), I444 (≠ L590)

Sites not aligning to the query:

binding flavin mononucleotide: 14, 16, 44, 135, 137, 171, 172, 352
binding 1,4-dihydronicotinamide adenine dinucleotide: 16, 17, 20, 25, 28, 49, 154, 157, 250
binding iron/sulfur cluster: 151, 305, 306, 307, 308, 311, 351, 354, 392
binding zinc ion: 288, 375, 381, 386

Query Sequence

>WP_093394837.1 NCBI__GCF_900114975.1:WP_093394837.1
MSERKILLGNEAIAYALVASGCHVVASYPGTPASEILQSILNLKQKHGIGDLYAEWSINE
KVAFETALAAAYSGLRAAASMKQVGLNVASDALMSAAYTGVAGGFIVISADDPGPHSSQT
EQDSRFFAMFAKIPVFDPSSPHEATECIASAFELSERYQIPVMVRPTTRVCHARQDVPLP
GFKRLKREPRFEKNPQRWAATPKFRYLLHKKLNEKMENISRENLISLPENPKPACVIASG
VVWAHLREIVEDLNLTDRLDLVKITMAYPISQSFLREIQNRYERILVLEETYPVIEVQFP
CRDRVSGRLDGTVPSEGELLPEKVEEIVRRWCDLTPSPSFHLPSKKQDRRPTLCPGCGHR
PVFFAIRKVFPGGIYPGDIGCYTLGLNLGAVDTVLCMGASVAQAAGFSRVFSLFGDQKEG
VPVIATIGDSTFFHAGIPPLINAVSGGARFILVIVDNGTTAMTGHQPTPDISIERMVEAC
GVGFIRVVDPYELSELMEALKEAGKYAFEDELGVAVVIARRPCIMNRKQDRGFDPVVVEV
TDECTGCQLCVDRFECPAILSRGKKEKVEIDRVLCTGCGVCVQVCPYGGLRVAGLDEV

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