SitesBLAST
Comparing WP_011188015.1 NCBI__GCF_000025945.1:WP_011188015.1 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 13 hits to proteins with known functional sites (download)
7zc6C Na+ - translocating ferredoxin: NAD+ reductase (rnf) of c. Tetanomorphum (see paper)
42% identity, 100% coverage: 1:438/438 of query aligns to 1:433/435 of 7zc6C
- binding flavin mononucleotide: G134 (= G135), K145 (= K146), N160 (= N161), C164 (= C165), G235 (= G240), A236 (≠ S241), Q263 (≠ H268), N264 (= N269), M331 (= M336), C407 (= C412)
- binding iron/sulfur cluster: C365 (= C370), I366 (= I371), C368 (= C373), C371 (= C376), C375 (= C380), T382 (≠ K387), C404 (= C409), E406 (= E411), C407 (= C412), C410 (= C415), C414 (= C419)
8ahxC Cryo-em structure of the nitrogen-fixation associated nadh:ferredoxin oxidoreductase rnf from azotobacter vinelandii
40% identity, 98% coverage: 4:433/438 of query aligns to 3:431/476 of 8ahxC
- binding flavin mononucleotide: G137 (= G135), G139 (= G137), N163 (= N161), C167 (= C165), G238 (= G240), S239 (= S241), H266 (= H268), N267 (= N269), M334 (= M336), C410 (= C412)
- binding iron/sulfur cluster: C368 (= C370), I369 (= I371), R370 (= R372), C371 (= C373), A372 (≠ G374), S373 (≠ W375), C374 (= C376), C378 (= C380), P379 (= P381), C407 (= C409), I408 (≠ F410), L409 (≠ E411), C410 (= C412), G411 (= G413), C413 (= C415), C417 (= C419), P418 (= P420), S419 (≠ M421)
B1VB77 Cobalamin reductase PduS; Corrin reductase; Propanediol utilization protein PduS from Citrobacter freundii (see paper)
31% identity, 68% coverage: 141:437/438 of query aligns to 34:338/451 of B1VB77
- C54 (= C165) mutation to A: Colorless protein, no 4Fe-4S centers, no cobalamin reductase activity.
- C264 (= C370) mutation to A: Colorless protein, no 4Fe-4S centers, no cobalamin reductase activity.
- C267 (= C373) mutation to A: Colorless protein, no 4Fe-4S centers, no cobalamin reductase activity.
- C270 (= C376) mutation to A: Colorless protein, no 4Fe-4S centers, no cobalamin reductase activity.
- C274 (= C380) mutation to A: Colorless protein, no 4Fe-4S centers, no cobalamin reductase activity.
- C309 (= C409) mutation to A: Colorless protein, no 4Fe-4S centers, no cobalamin reductase activity.
- C312 (= C412) mutation to A: Colorless protein, no 4Fe-4S centers, no cobalamin reductase activity.
- C315 (= C415) mutation to A: Colorless protein, no 4Fe-4S centers, no cobalamin reductase activity.
- C320 (= C419) mutation to A: Colorless protein, no 4Fe-4S centers, no cobalamin reductase activity.
7p61F Complex i from e. Coli, ddm-purified, with nadh, resting state (see paper)
25% identity, 69% coverage: 119:422/438 of query aligns to 45:395/442 of 7p61F
- binding flavin mononucleotide: G61 (= G135), G63 (= G137), K72 (= K146), N90 (= N161), D92 (≠ A163), G181 (= G240), E182 (≠ S241), N217 (≠ H268), N218 (= N269)
- binding 1,4-dihydronicotinamide adenine dinucleotide: G63 (= G137), G64 (= G138), A65 (= A139), F67 (= F141), K72 (= K146), L75 (vs. gap), E95 (= E166), Y178 (= Y237), E183 (= E242), F203 (≠ V254), R320 (≠ K349), T323 (≠ S352)
- binding iron/sulfur cluster: S350 (≠ R372), C351 (= C373), W353 (= W375), C354 (= C376), C357 (= C380)
Sites not aligning to the query:
6tg9B Cryo-em structure of nadh reduced form of NAD+-dependent formate dehydrogenase from rhodobacter capsulatus (see paper)
25% identity, 52% coverage: 122:347/438 of query aligns to 133:385/493 of 6tg9B
- binding flavin mononucleotide: G146 (= G135), R147 (≠ I136), G148 (= G137), N174 (= N161), D176 (≠ A163), E177 (= E164), Y254 (= Y237), G257 (= G240), E258 (≠ S241), N293 (≠ H268), N294 (= N269), S297 (≠ T272)
- binding 1,4-dihydronicotinamide adenine dinucleotide: F152 (= F141), K157 (= K146), E258 (≠ S241), E259 (= E242), L279 (≠ V254)
Sites not aligning to the query:
- binding 1,4-dihydronicotinamide adenine dinucleotide: 466, 470
- binding iron/sulfur cluster: 426, 427, 428, 429, 430, 433, 470, 471, 474
Q91YT0 NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial; NDUFV1; Complex I-51kD; CI-51kD; NADH-ubiquinone oxidoreductase 51 kDa subunit; EC 7.1.1.2 from Mus musculus (Mouse) (see 2 papers)
26% identity, 45% coverage: 124:319/438 of query aligns to 76:282/464 of Q91YT0
Sites not aligning to the query:
- 1:20 modified: transit peptide, Mitochondrion
- 379 binding [4Fe-4S] cluster
- 382 binding [4Fe-4S] cluster
- 385 binding [4Fe-4S] cluster
- 425 binding [4Fe-4S] cluster
6vw7D Formate dehydrogenase fdsabg subcomplex fdsbg from c. Necator - nadh bound (see paper)
21% identity, 54% coverage: 119:353/438 of query aligns to 138:407/514 of 6vw7D
- binding flavin mononucleotide: G154 (= G135), G156 (= G137), K165 (= K146), N182 (= N161), E185 (= E164), G273 (= G240), E274 (≠ S241), E275 (= E242), N309 (≠ H268), N310 (= N269), S313 (≠ T272)
- binding 1,4-dihydronicotinamide adenine dinucleotide: A158 (= A139), F160 (= F141), K165 (= K146), T168 (≠ P149), E275 (= E242), L295 (≠ V254)
- binding iron/sulfur cluster: V271 (≠ P238), V289 (vs. gap)
Sites not aligning to the query:
- binding flavin mononucleotide: 490, 491
- binding iron/sulfur cluster: 442, 443, 444, 445, 446, 449, 488, 489, 491, 492
7arcF Cryo-em structure of polytomella complex-i (peripheral arm) (see paper)
22% identity, 50% coverage: 114:330/438 of query aligns to 47:289/430 of 7arcF
- binding flavin mononucleotide: G61 (= G135), R62 (≠ I136), K72 (= K146), N90 (= N161), D92 (≠ A163), E93 (= E164), S94 (≠ C165), Y178 (= Y237), G181 (= G240), E182 (≠ S241), T217 (≠ H268), N218 (= N269)
Sites not aligning to the query:
7dgq8 NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (see paper)
24% identity, 47% coverage: 124:330/438 of query aligns to 45:284/427 of 7dgq8
- binding flavin mononucleotide: G58 (= G137), K67 (= K146), N85 (= N161), D87 (≠ A163), E88 (= E164), G89 (≠ C165), C175 (≠ Q239), G176 (= G240), A212 (≠ H268), N213 (= N269)
- binding : R121 (≠ S197), Y132 (vs. gap), Q139 (= Q212), R143 (≠ Q216), Y146 (vs. gap), E147 (vs. gap), F165 (≠ C231), R168 (≠ Q234)
Sites not aligning to the query:
6zk91 Peripheral domain of open complex i during turnover (see paper)
24% identity, 47% coverage: 124:330/438 of query aligns to 48:287/430 of 6zk91
- binding flavin mononucleotide: G59 (= G135), G61 (= G137), K70 (= K146), N88 (= N161), D90 (≠ A163), E91 (= E164), G179 (= G240), E180 (≠ S241), A215 (≠ H268), N216 (= N269)
- binding 1,4-dihydronicotinamide adenine dinucleotide: G61 (= G137), G62 (= G138), A63 (= A139), F65 (= F141), K70 (= K146), E93 (= E166), Y176 (= Y237), E181 (= E242), F201 (≠ L259)
- binding iron/sulfur cluster: I177 (≠ P238), P195 (= P255)
Sites not aligning to the query:
5lnk1 Entire ovine respiratory complex i (see paper)
24% identity, 47% coverage: 124:330/438 of query aligns to 50:289/432 of 5lnk1
- binding fe2/s2 (inorganic) cluster: P96 (= P167), G97 (≠ Y168)
- binding flavin mononucleotide: G61 (= G135), R62 (≠ I136), K72 (= K146), N90 (= N161), D92 (≠ A163), E93 (= E164), G94 (≠ C165), Y178 (= Y237), G181 (= G240), E182 (≠ S241), V216 (= V267), A217 (≠ H268), N218 (= N269), T221 (= T272)
- binding iron/sulfur cluster: P197 (= P255)
Sites not aligning to the query:
P25708 NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial; NDUFV1; Complex I-51kD; CI-51kD; NADH dehydrogenase flavoprotein 1; NADH-ubiquinone oxidoreductase 51 kDa subunit; EC 7.1.1.2 from Bos taurus (Bovine) (see paper)
23% identity, 47% coverage: 124:330/438 of query aligns to 76:315/464 of P25708
Sites not aligning to the query:
- 379 binding [4Fe-4S] cluster
- 382 binding [4Fe-4S] cluster
- 385 binding [4Fe-4S] cluster
- 425 binding [4Fe-4S] cluster
8e9hF Mycobacterial respiratory complex i, fully-inserted quinone (see paper)
22% identity, 46% coverage: 123:325/438 of query aligns to 41:283/436 of 8e9hF
- binding flavin mononucleotide: G53 (= G135), R54 (≠ I136), G55 (= G137), A57 (= A139), K64 (= K146), N90 (= N161), D92 (≠ A163), Y178 (= Y237), G181 (= G240), E182 (≠ S241), E183 (= E242), N217 (≠ H268), N218 (= N269), S221 (≠ T272)
- binding iron/sulfur cluster: P197 (vs. gap)
Sites not aligning to the query:
- binding flavin mononucleotide: 398
- binding iron/sulfur cluster: 349, 350, 351, 352, 353, 356, 394, 395, 396, 398, 399
- binding zinc ion: 333, 371, 420, 425
Query Sequence
>WP_011188015.1 NCBI__GCF_000025945.1:WP_011188015.1
MALLTFTKGGVHPPEAKEQTAGLAIEVMPVPDELELVLGQHIGAPCTPTVARRDQVQEGG
LIGEVKKGLGVPLHSPVAGTIKALGNSGHPMRVSTPSVTITVDHDVPAKEYIPQDWQQLE
VSELLSMVHDAGIVGIGGAGFPSHVKLSPPSSTPIDTLVLNGAECEPYITADHRQMLEHA
RDVVEGARIICKILGVSRCSVGIESNKPDAIQVMEQEVQAVADSQLTIEVCALQVKYPQG
SEKQLIQAITGRKVPAMSLPSAVGVVVHNVSTARAIYQAVALQKPLYEKVITVAGKCIER
PANLQVKLGTKISDIVNYLGGLKPGLTRIIMGGPMMGFAVSDLDIPITKTTSALLFLAED
EVDTNEPGPCIRCGWCLDACPMGLEPKEIGVFVEAGRAEDTAQFGVFDCFECGSCAFVCP
MKRPLVQFVRLAKMKIKR
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