SitesBLAST
Comparing WP_013258956.1 NCBI__GCF_000143965.1:WP_013258956.1 to proteins with known functional sites using BLASTp with E ≤ 0.001.
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Found 6 hits to proteins with known functional sites (download)
5odhG Heterodisulfide reductase / [nife]-hydrogenase complex from methanothermococcus thermolithotrophicus soaked with heterodisulfide for 3.5 minutes (see paper)
41% identity, 42% coverage: 8:435/1011 of query aligns to 140:568/653 of 5odhG
- binding flavin-adenine dinucleotide: I148 (= I16), G149 (= G17), G150 (= G18), G151 (= G19), V152 (≠ I20), A153 (= A21), E172 (≠ D40), K173 (= K41), G179 (= G47), R180 (≠ Y48), L184 (= L52), T187 (≠ Q55), F188 (= F56), I327 (≠ T194), G328 (= G195), Y329 (≠ A196), Y405 (≠ F274), K408 (= K277), S499 (≠ E368), G538 (= G405), K544 (= K411), D545 (= D412), I546 (= I413), S549 (= S416)
- binding iron/sulfur cluster: C245 (= C113), T246 (= T114), G247 (≠ A115), C248 (= C116), C251 (= C119), C255 (≠ A123), P256 (= P124), C292 (≠ V159), I293 (≠ G160), E294 (≠ Q161), C295 (≠ D162), C298 (≠ W165), C302 (= C169), C385 (= C253), C398 (= C267), S399 (= S268), N400 (≠ S269), C402 (= C271), C403 (= C272), R430 (= R300)
Sites not aligning to the query:
- binding fe (iii) ion: 45, 75
- binding iron/sulfur cluster: 10, 12, 45, 69, 70, 75, 583, 585, 586, 587, 589, 593, 609, 616, 617, 619, 620, 622, 626, 628
5odcA Heterodisulfide reductase / [nife]-hydrogenase complex from methanothermococcus thermolithotrophicus at 2.3 a resolution (see paper)
41% identity, 42% coverage: 8:435/1011 of query aligns to 140:568/653 of 5odcA
- binding flavin-adenine dinucleotide: I148 (= I16), G149 (= G17), G151 (= G19), V152 (≠ I20), A153 (= A21), E172 (≠ D40), K173 (= K41), G179 (= G47), R180 (≠ Y48), L184 (= L52), T187 (≠ Q55), F188 (= F56), A326 (= A193), I327 (≠ T194), G328 (= G195), Y329 (≠ A196), A351 (≠ S219), L352 (= L220), E355 (= E223), Y405 (≠ F274), K408 (= K277), S499 (≠ E368), G538 (= G405), K544 (= K411), D545 (= D412), I546 (= I413)
- binding iron/sulfur cluster: C245 (= C113), T246 (= T114), G247 (≠ A115), C248 (= C116), G249 (= G117), C251 (= C119), C255 (≠ A123), P256 (= P124), Y285 (≠ F152), C292 (≠ V159), E294 (≠ Q161), C295 (≠ D162), G296 (≠ T163), C298 (≠ W165), C302 (= C169), Q384 (= Q252), C385 (= C253), R389 (= R257), C398 (= C267), S399 (= S268), N400 (≠ S269), C402 (= C271), C403 (= C272), R430 (= R300)
Sites not aligning to the query:
- binding iron/sulfur cluster: 10, 12, 45, 69, 70, 75, 576, 583, 586, 587, 588, 589, 593, 609, 616, 617, 619, 620, 622, 626, 628, 631
7bkdA Formate dehydrogenase - heterodisulfide reductase - formylmethanofuran dehydrogenase complex from methanospirillum hungatei (heterodislfide reductase core and mobile arm in conformational state 1, composite structure) (see paper)
34% identity, 40% coverage: 11:417/1011 of query aligns to 144:563/664 of 7bkdA
- binding flavin-adenine dinucleotide: V149 (≠ I16), G150 (= G17), G152 (= G19), V153 (≠ I20), E173 (≠ D40), R174 (≠ K41), G180 (= G47), R181 (≠ Y48), L185 (= L52), T188 (≠ Q55), F189 (= F56), A339 (= A193), T340 (= T194), G341 (= G195), Y342 (≠ A196), E368 (= E223), Y419 (≠ F274), K422 (= K277), V552 (≠ M406), K557 (= K411), I559 (= I413)
- binding iron/sulfur cluster: C257 (vs. gap), G259 (vs. gap), C260 (vs. gap), G261 (≠ E111), C263 (= C113), C267 (≠ G117), P268 (≠ E118), A284 (≠ T139), I285 (≠ T140), Y297 (≠ F152), C304 (≠ V159), V305 (≠ G160), K306 (≠ Q161), C307 (≠ D162), G308 (≠ T163), C310 (≠ W165), C314 (= C169), A319 (= A173), L397 (≠ Q252), C398 (= C253), C412 (= C267), S413 (= S268), R414 (≠ S269), C416 (= C271), C417 (= C272), R444 (= R300)
Sites not aligning to the query:
- binding iron/sulfur cluster: 10, 12, 45, 69, 70, 596, 597, 599, 600, 602, 606, 611, 629, 630, 632, 633, 635, 639, 644
6tjrA Structure of hdra-like subunit from hyphomicrobium denitrificans (see paper)
31% identity, 23% coverage: 181:417/1011 of query aligns to 95:325/340 of 6tjrA
- binding flavin-adenine dinucleotide: T108 (= T194), G109 (= G195), F110 (≠ A196), H112 (≠ L198), T132 (≠ S219), I178 (= I270), V182 (≠ F274), N272 (≠ S366), D274 (≠ E368), S314 (≠ M406), E319 (≠ K411), T320 (≠ D412), I321 (= I413)
- binding iron/sulfur cluster: C162 (= C253), S165 (= S256), R166 (= R257), C175 (= C267), S176 (= S268), K177 (≠ S269), C179 (= C271), C180 (= C272), R207 (= R300)
Sites not aligning to the query:
- binding flavin-adenine dinucleotide: 7, 9, 10, 11, 30, 31, 32, 37, 38, 44, 47, 48
8a8oD Paps reductase from methanothermococcus thermolithotrophicus refined to 1.45 a (see paper)
33% identity, 7% coverage: 938:1006/1011 of query aligns to 3:70/102 of 8a8oD
- binding iron/sulfur cluster: C9 (= C944), I10 (≠ A945), G11 (≠ A946), C12 (= C947), G13 (≠ L948), C15 (= C950), C19 (= C954), P20 (= P955), S32 (= S967), C40 (= C974), W41 (≠ L975), D42 (≠ G976), C43 (= C977), A44 (≠ G978), C46 (= C980), C50 (= C984), I55 (= I989)
Sites not aligning to the query:
7p8nB Tmhydabc- t. Maritima hydrogenase with bridge closed (see paper)
41% identity, 5% coverage: 942:990/1011 of query aligns to 565:613/613 of 7p8nB
- binding iron/sulfur cluster: C567 (= C944), C570 (= C947), G571 (≠ L948), C573 (= C950), C577 (= C954), Y590 (≠ S967), I592 (= I969), C597 (= C974), K599 (≠ G976), C600 (= C977), G601 (= G978), C603 (= C980), C607 (= C984)
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_013258956.1 NCBI__GCF_000143965.1:WP_013258956.1
MSDATQKGRLETVLVIGGGIAGLKSALDLAESGRQVVVTDKAPNLGGYLPLLDRQFPTND
CQICYLSPDMAPAGFDIGIGVMPLTEVVGVSGQAGDFTVELTTKPRYIDTELCTACGECL
KAAPEGAVSFTPGLDHRSTTCLRYPQAVPQAFAINIDKVGQDTSWIKCCEPGAIKLDQKP
ESVKLNVGSIIVATGAELFDPTPLSDYFGYGQFPDVVTSLEFERILSPAGPTCGAFARPS
DGRRPTRIGWVQCVGSRTTKAPGNPYCSSICCMFAMKEAAWAKEHFASDLDATIFYMDIR
PMGKDYEQYYQRMKNDVGVNFVRCRPHTVRRDEATNDLLLSYATEDGQQLEAALDMLVLA
TGFCASKEAVSTAQALGIELDKYNFVKVSDKAPVSTSREGVYACGMSTGPKDIPDSLMQA
SAAACLASAHLTPPEPVRYEKDLPPERDTASETPKIGVFVADFGGNMAKYVDLAKVMAAA
KTMPNVCCVEEIKVSYAGGQGLTQMIDSIKASGVNRVVVVGNSPRTHGKIYAEAVRRAGL
NRAMVEIANVRDQDALVHRDAPEAATHKAIMLVRMAVGRVKLAKPIYVHAQSLDKTALVV
GGGVAGLTAALQLAKQGISVKLVERDKQLGGMALNLAHTLGGEPVRPIVEELVAQVQASD
KIEVILDALVVDHKGCVGDFTTGVQSGPAMYYQQIKHGVTIIATGGKAYKPEGYFYGKNP
AVMTQVELGVKLAAGQTDGLDTVVMIQCVGSRNDANPACGRICCRSAVLNALEIKRKKPE
ATVVVLYRDMRTPYDSEDNYRLARELGVLFARYEAGQPPKVADNGATMLVEFDDPILGRT
VDVEATALVLSTPQVADEEGLEDLCDIFKLQQTETGFLLEEHVKVRPVDTPEPGVFAAGS
VLAPKSIDEAITQGAAAAGRAITVLAQESVQVSGGVAKVVGEMCAACLVCVRACPIGVPF
INADGYSQIDPEKCLGCGICAAECPAKAIQLQGYDDDQIMGQTDALLEGVL
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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