SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_083947292.1 NCBI__GCF_001601575.1:WP_083947292.1 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 4 hits to proteins with known functional sites (download)

5c4iE Structure of an oxalate oxidoreductase (see paper)
80% identity, 100% coverage: 2:315/315 of query aligns to 1:312/312 of 5c4iE

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binding iron/sulfur cluster: C258 (= C261), T259 (= T262), E260 (≠ Q263), C261 (= C264), Y262 (≠ W265), C264 (= C267), C268 (= C271), C272 (= C275), C287 (= C290), K288 (= K291), G289 (= G292), C290 (= C293), G291 (= G294), C293 (= C296), C297 (= C300), P298 (= P301), S299 (≠ T302), L302 (≠ I305)

5exdH Crystal structure of oxalate oxidoreductase from moorella thermoacetica bound with carboxy-di-oxido-methyl-tpp (coom-tpp) intermediate (see paper)
72% identity, 99% coverage: 5:315/315 of query aligns to 1:291/291 of 5exdH

query
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binding iron/sulfur cluster: P230 (= P254), C237 (= C261), T238 (= T262), E239 (≠ Q263), C240 (= C264), Y241 (≠ W265), C243 (= C267), C247 (= C271), P259 (= P283), C266 (= C290), K267 (= K291), G268 (= G292), C269 (= C293), G270 (= G294), C272 (= C296), C276 (= C300), S278 (≠ T302), L281 (≠ I305)

9bt4G Pyruvate:ferredoxin oxidoreductase from methanosarcina acetivorans (see paper)
47% identity, 21% coverage: 246:310/315 of query aligns to 18:83/85 of 9bt4G

query
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9bt4G

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binding iron/sulfur cluster: P26 (= P254), Y28 (≠ L256), C33 (= C261), T34 (= T262), K35 (≠ Q263), C36 (= C264), G37 (≠ W265), C39 (= C267), C43 (= C271), P44 (= P272), F56 (≠ L284), Y58 (≠ F285), C63 (= C290), K64 (= K291), G65 (= G292), C66 (= C293), G67 (= G294), C69 (= C296), C73 (= C300), A77 (= A304), I78 (= I305)

7p8nB Tmhydabc- t. Maritima hydrogenase with bridge closed (see paper)
32% identity, 39% coverage: 183:305/315 of query aligns to 507:612/613 of 7p8nB

query
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binding flavin mononucleotide: G521 (≠ R197), L522 (≠ R198)
binding iron/sulfur cluster: L519 (≠ A195), C520 (≠ M196), L522 (≠ R198), G523 (= G199), Y560 (≠ P254), C567 (= C261), C570 (= C264), G571 (≠ W265), C573 (= C267), C577 (= C271), Y590 (≠ F285), I592 (≠ L287), C597 (= C290), K599 (≠ G292), C600 (= C293), G601 (= G294), C603 (= C296), C607 (= C300)
binding zinc ion: H544 (≠ Q227), C549 (≠ V234), C554 (≠ I245)

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
binding iron/sulfur cluster: 320, 473, 474, 475, 476, 477, 480
binding zinc ion: 457

Query Sequence

>WP_083947292.1 NCBI__GCF_001601575.1:WP_083947292.1
MSSADLFKEPNLKQITVWSRGVIMNKDARDVVVALTEAAAKEGKYVQAWENYVDLPDRIN
VPVRAYARISSDPIASRYVYENESPDIVVVLEETLVKGVPVLKGIKPGSTLIVNTRRSID
TILKFLGDTGNLAQIATVDASSMAEAVITLSGAEGATDATGIGAGIAAPIVGAVAKVTGI
VDVENLAKVVKNPAAMRRGYEEVQVKTLPPKPAVEETKLEAMELLKQMPFAGTVPSPQEE
NEGMITGNWRMKRPVLNTDACTQCWTCWIYCPDSCIKKGDDGPLFNLKYCKGCGLCAAVC
PTGAITQVPELDFED

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