SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_084055834.1 NCBI__GCF_900176285.1:WP_084055834.1 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 5 hits to proteins with known functional sites (download)

7zc6B Na+ - translocating ferredoxin: NAD+ reductase (rnf) of c. Tetanomorphum (see paper)
39% identity, 8% coverage: 560:610/612 of query aligns to 78:126/202 of 7zc6B

query
sites
7zc6B

C
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G

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binding iron/sulfur cluster: C78 (= C560), G82 (= G564), C84 (= C566), C88 (= C572), C107 (= C591), T108 (= T592), G109 (= G593), C110 (= C594), G111 (= G595), C113 (= C597), C117 (= C601)

Sites not aligning to the query:

binding iron/sulfur cluster: 41, 42, 43, 60, 74, 77, 135, 148, 152, 153, 155, 156, 157, 158, 162, 181, 183, 184, 185, 187, 191

7q4vF Electron bifurcating hydrogenase - hydabc from a. Woodii (see paper)
40% identity, 9% coverage: 555:609/612 of query aligns to 416:470/470 of 7q4vF

query
sites
7q4vF

R

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binding iron/sulfur cluster: I417 (= I556), C422 (= C560), G424 (= G562), C425 (= C563), G426 (= G564), I427 (≠ F565), C428 (= C566), C432 (= C572), P433 (= P573), I437 (≠ F577), Y445 (≠ V584), C452 (= C591), K454 (≠ G593), C455 (= C594), G456 (= G595), A457 (≠ V596), C458 (= C597), C462 (= C601), P463 (= P602), I467 (= I606)

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
binding zinc ion: 311, 398, 404, 409

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: 555:609/612 of query aligns to 393:447/447 of 8a5eB

query
sites
8a5eB

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binding iron/sulfur cluster: C399 (= C560), G401 (= G562), C402 (= C563), G403 (= G564), C405 (= C566), C409 (= C572), P410 (= P573), I414 (≠ F577), C429 (= C591), K431 (≠ G593), C432 (= C594), G433 (= G595), C435 (= C597), C439 (= C601), P440 (= P602), I444 (= I606)

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

7q4vB Electron bifurcating hydrogenase - hydabc from a. Woodii (see paper)
40% identity, 9% coverage: 555:609/612 of query aligns to 545:599/599 of 7q4vB

query
sites
7q4vB

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K

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binding iron/sulfur cluster: C551 (= C560), K552 (≠ Q561), G553 (= G562), C554 (= C563), G555 (= G564), I556 (≠ F565), C557 (= C566), C561 (= C572), P562 (= P573), Y574 (≠ V584), C581 (= C591), K583 (≠ G593), C584 (= C594), G585 (= G595), A586 (≠ V596), C587 (= C597), C591 (= C601), F593 (≠ H603), S595 (≠ A605)

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

3bk7A Structure of the complete abce1/rnaase-l inhibitor protein from pyrococcus abysii (see paper)
36% identity, 9% coverage: 558:612/612 of query aligns to 13:76/593 of 3bk7A

query
sites
3bk7A

D

D

K

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binding iron/sulfur cluster: C15 (= C560), N16 (≠ Q561), C20 (= C563), C25 (≠ T568), C29 (= C572), P30 (= P573), A38 (= A583), I39 (≠ V584), C55 (= C591), T56 (= T592), G57 (= G593), C58 (= C594), G59 (= G595), C61 (= C597), C65 (= C601), I70 (= I606)

Sites not aligning to the query:

binding adenosine-5'-diphosphate: 87, 92, 112, 113, 114, 115, 116, 117, 118, 292, 353, 377, 378, 379, 380, 381, 382, 383

Query Sequence

>WP_084055834.1 NCBI__GCF_900176285.1:WP_084055834.1
MTERKILLGNEAMAHGLLEAGCTLAASYPGTPASEIVGTLAAFKRSGTIAMHVEWSINEK
VALETALASSYAGRRSAAAMKQVGLNVAADPFMSAAYTGVTGGLVVIVADDPGPHSSQTE
QDTRQFAMFAKVPVLDPMSPAHARDLLLTAFDLSEDYQIPVLFRPTTRVCHARQDMPLRP
FRQDAPLAQFEKDPARWAATPKFRFLLHKKLNEKLDAIGRDPRLQPVQLNPGASAEKGGG
VIVASGAVCAHTAEVLKDLGLWQSIPLYDAPMPFPLSEDFLTGLLDNAPRILVLEETQPV
MEAQFRDRAKVLGRLSGHVPREGELLPETVERIVRAFAGLPQAEASQGANAPGRRPTLCP
GCAHRAAFFAIRKVFPRGIYPGDIGCYTLGLNLGAVDTVLCMGASISQAAGFYHAFRDSG
QNSRPIVATIGDSTFYHAGIPALINAVIQGCRFVVVVLDNTTTAMTGHQPTPAEGRSLDG
RTVPRVRIEDLARACGVRHVSVGDPYDFQAFTDLLKAAREHTRDPENGGMAVVIARRPCL
MDRKQAQPARRPAPRINDKCQGCGFCITHFECPALVFHGKEEAVTVDDALCTGCGVCIHV
CPHSAIEMAPQP

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