SitesBLAST
Comparing SMc03204 SMc03204 dihydrolipoamide dehydrogenase to proteins with known functional sites using BLASTp with E ≤ 0.001.
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Found 20 (the maximum) hits to proteins with known functional sites (download)
6cmzA 2.3 angstrom resolution crystal structure of dihydrolipoamide dehydrogenase from burkholderia cenocepacia in complex with fad and NAD
59% identity, 100% coverage: 2:464/464 of query aligns to 1:462/462 of 6cmzA
- active site: C42 (= C43), C47 (= C48), S50 (= S51), Y184 (= Y186), E188 (= E190), H441 (= H443), E446 (= E448)
- binding flavin-adenine dinucleotide: G11 (= G12), G13 (= G14), P14 (= P15), E34 (= E35), R35 (≠ K36), G40 (= G41), T41 (= T42), C42 (= C43), G46 (= G47), C47 (= C48), K51 (= K52), E116 (= E118), A117 (≠ G119), T145 (= T147), G146 (= G148), V180 (≠ I182), G181 (= G183), Y184 (= Y186), I185 (= I187), E204 (= E206), V268 (= V270), R270 (= R272), R273 (≠ V275), F277 (≠ W279), R289 (= R291), G308 (= G310), D309 (= D311), M315 (= M317), L316 (= L318), A317 (= A319), H318 (= H320)
- binding flavin mononucleotide: L152 (= L154), P153 (= P155)
6cmzB 2.3 angstrom resolution crystal structure of dihydrolipoamide dehydrogenase from burkholderia cenocepacia in complex with fad and NAD
59% identity, 99% coverage: 2:461/464 of query aligns to 1:459/459 of 6cmzB
- active site: C42 (= C43), C47 (= C48), S50 (= S51), Y184 (= Y186), E188 (= E190), H441 (= H443), E446 (= E448)
- binding adenosine-5'-diphosphate: V150 (= V152), L152 (= L154), G181 (= G183), G183 (= G185), A205 (= A207), V268 (= V270), G269 (= G271)
- binding flavin-adenine dinucleotide: G11 (= G12), G13 (= G14), P14 (= P15), E34 (= E35), R35 (≠ K36), T41 (= T42), C42 (= C43), G46 (= G47), C47 (= C48), K51 (= K52), E116 (= E118), A117 (≠ G119), T145 (= T147), G146 (= G148), S164 (= S166), Y184 (= Y186), I185 (= I187), R270 (= R272), F277 (≠ W279), G308 (= G310), D309 (= D311), M315 (= M317), L316 (= L318), A317 (= A319), H318 (= H320)
P09063 Dihydrolipoyl dehydrogenase; Dihydrolipoamide dehydrogenase; E3 component of branched-chain alpha-keto acid dehydrogenase complex; LPD-Val; EC 1.8.1.4 from Pseudomonas putida (Arthrobacter siderocapsulatus) (see paper)
57% identity, 100% coverage: 2:464/464 of query aligns to 3:459/459 of P09063
- 36:44 (vs. 35:43, 56% identical) binding
- C44 (= C43) modified: Disulfide link with 49, Redox-active
- C49 (= C48) modified: Disulfide link with 44, Redox-active
- K53 (= K52) binding
- A119 (≠ G119) binding
- A142 (= A146) binding
- GGGYI 179:183 (= GGGYI 183:187) binding
- Y182 (= Y186) binding
- E202 (= E206) binding
- V236 (≠ L243) binding
- AVGR 264:267 (≠ TVGR 269:272) binding
- D306 (= D311) binding
- M312 (= M317) binding
- A314 (= A319) binding
1lvlA The refined structure of pseudomonas putida lipoamide dehydrogenase complexed with NAD+ at 2.45 angstroms resolution (see paper)
57% identity, 100% coverage: 2:464/464 of query aligns to 2:458/458 of 1lvlA
- active site: P15 (= P15), L39 (≠ A39), C43 (= C43), C48 (= C48), S51 (= S51), S79 (≠ A80), P80 (= P81), Y181 (= Y186), E185 (= E190), M317 (= M323), H435 (= H441), H437 (= H443), E442 (= E448)
- binding flavin-adenine dinucleotide: I11 (≠ L11), G12 (= G12), E35 (= E35), G36 (≠ K36), G41 (= G41), T42 (= T42), C43 (= C43), G47 (= G47), C48 (= C48), K52 (= K52), W117 (≠ E118), A118 (≠ G119), A141 (= A146), T142 (= T147), G143 (= G148), Y181 (= Y186), R266 (= R272), R269 (≠ V275), D305 (= D311), L312 (= L318), A313 (= A319), H314 (= H320)
- binding nicotinamide-adenine-dinucleotide: V177 (≠ I182), G178 (= G183), Y181 (= Y186), I182 (= I187), E201 (= E206), A263 (≠ T269), V264 (= V270), G265 (= G271), R266 (= R272), E309 (= E315), M311 (= M317)
P11959 Dihydrolipoyl dehydrogenase; Dihydrolipoamide dehydrogenase; E3 component of pyruvate complex; EC 1.8.1.4 from Geobacillus stearothermophilus (Bacillus stearothermophilus) (see paper)
46% identity, 99% coverage: 4:464/464 of query aligns to 8:467/470 of P11959
- 39:47 (vs. 35:43, 56% identical) binding
- K56 (= K52) binding
- D314 (= D311) binding
- A322 (= A319) binding
1ebdA Dihydrolipoamide dehydrogenase complexed with the binding domain of the dihydrolipoamide acetylase (see paper)
46% identity, 97% coverage: 4:454/464 of query aligns to 2:451/455 of 1ebdA
- active site: P13 (= P15), L37 (≠ A39), C41 (= C43), C46 (= C48), S49 (= S51), N74 (≠ A80), V75 (≠ P81), Y180 (= Y186), E184 (= E190), S320 (≠ M323), H438 (= H441), H440 (= H443), E445 (= E448)
- binding flavin-adenine dinucleotide: G10 (= G12), G12 (= G14), P13 (= P15), V32 (= V34), E33 (= E35), K34 (= K36), G39 (= G41), V40 (≠ T42), C41 (= C43), G45 (= G47), C46 (= C48), K50 (= K52), E112 (= E118), A113 (≠ G119), T141 (= T147), G142 (= G148), Y180 (= Y186), I181 (= I187), R268 (= R272), D308 (= D311), A314 (≠ M317), L315 (= L318), A316 (= A319)
P18925 Dihydrolipoyl dehydrogenase; Dihydrolipoamide dehydrogenase; E3 component of pyruvate complex; EC 1.8.1.4 from Azotobacter vinelandii (see 2 papers)
44% identity, 98% coverage: 8:464/464 of query aligns to 7:472/477 of P18925
- 34:49 (vs. 35:43, 44% identical) binding
- C49 (= C43) modified: Disulfide link with 54, Redox-active
- C54 (= C48) modified: Disulfide link with 49, Redox-active
- K58 (= K52) binding
- D319 (= D311) binding
- A327 (= A319) binding
3ladA Refined crystal structure of lipoamide dehydrogenase from azotobacter vinelandii at 2.2 angstroms resolution. A comparison with the structure of glutathione reductase (see paper)
44% identity, 98% coverage: 8:464/464 of query aligns to 6:471/472 of 3ladA
- active site: L44 (vs. gap), C48 (= C43), C53 (= C48), S56 (= S51), V190 (≠ Y186), E194 (= E190), F448 (≠ H441), H450 (= H443), E455 (= E448)
- binding flavin-adenine dinucleotide: I9 (≠ L11), G10 (= G12), G12 (= G14), P13 (= P15), E33 (= E35), K34 (= K36), G46 (= G41), T47 (= T42), C48 (= C43), G52 (= G47), C53 (= C48), H120 (≠ E118), G121 (= G119), A149 (= A146), S150 (≠ T147), G151 (= G148), I191 (= I187), R278 (= R272), D318 (= D311), L325 (= L318), A326 (= A319)
3urhB Crystal structure of a dihydrolipoamide dehydrogenase from sinorhizobium meliloti 1021
43% identity, 98% coverage: 8:463/464 of query aligns to 3:465/465 of 3urhB
- active site: Y35 (≠ A39), C39 (= C43), C44 (= C48), S47 (= S51), V183 (≠ Y186), E187 (= E190), H443 (= H441), H445 (= H443), E450 (= E448)
- binding flavin-adenine dinucleotide: I6 (≠ L11), G7 (= G12), G9 (= G14), P10 (= P15), G11 (= G16), E30 (= E35), K31 (= K36), G37 (= G41), T38 (= T42), C39 (= C43), G43 (= G47), C44 (= C48), K48 (= K52), T111 (≠ E118), G112 (= G119), A140 (= A146), T141 (= T147), G142 (= G148), I184 (= I187), R273 (= R272), G312 (= G310), D313 (= D311), M319 (= M317), L320 (= L318), A321 (= A319), H322 (= H320)
P14218 Dihydrolipoyl dehydrogenase; Dihydrolipoamide dehydrogenase; E3 component of 2-oxoglutarate dehydrogenase complex; EC 1.8.1.4 from Pseudomonas fluorescens (see 2 papers)
43% identity, 98% coverage: 8:464/464 of query aligns to 7:472/478 of P14218
- 34:49 (vs. 35:43, 38% identical) binding
- C49 (= C43) modified: Disulfide link with 54, Redox-active
- C54 (= C48) modified: Disulfide link with 49, Redox-active
- K58 (= K52) binding
- G122 (= G119) binding
- D319 (= D311) binding
- A327 (= A319) binding
Sites not aligning to the query:
- 1 modified: Initiator methionine, Removed
5u8uD Dihydrolipoamide dehydrogenase (lpdg) from pseudomonas aeruginosa (see paper)
43% identity, 98% coverage: 8:464/464 of query aligns to 9:474/477 of 5u8uD
- active site: P16 (= P15), L47 (≠ A39), C51 (= C43), C56 (= C48), S59 (= S51), G85 (≠ A80), V86 (≠ P81), V193 (≠ Y186), E197 (= E190), S333 (≠ M323), F451 (≠ H441), H453 (= H443), E458 (= E448)
- binding flavin-adenine dinucleotide: I12 (≠ L11), G15 (= G14), P16 (= P15), G17 (= G16), E36 (= E35), K37 (= K36), G49 (= G41), T50 (= T42), C51 (= C43), G55 (= G47), C56 (= C48), K60 (= K52), H123 (≠ E118), G124 (= G119), A152 (= A146), S153 (≠ T147), G154 (= G148), I194 (= I187), R281 (= R272), G320 (= G310), D321 (= D311), M327 (= M317), L328 (= L318), A329 (= A319), H330 (= H320), H453 (= H443), P454 (= P444)
Sites not aligning to the query:
5u8wA Dihydrolipoamide dehydrogenase (lpdg) from pseudomonas aeruginosa bound to nadh (see paper)
43% identity, 98% coverage: 8:464/464 of query aligns to 6:471/473 of 5u8wA
- active site: P13 (= P15), L44 (≠ A39), C48 (= C43), C53 (= C48), S56 (= S51), G82 (≠ A80), V83 (≠ P81), V190 (≠ Y186), E194 (= E190), S330 (≠ M323), F448 (≠ H441), H450 (= H443), E455 (= E448)
- binding flavin-adenine dinucleotide: I9 (≠ L11), G12 (= G14), P13 (= P15), G14 (= G16), E33 (= E35), K34 (= K36), G46 (= G41), T47 (= T42), C48 (= C43), G52 (= G47), C53 (= C48), K57 (= K52), H120 (≠ E118), G121 (= G119), A149 (= A146), S150 (≠ T147), G151 (= G148), S170 (= S166), G317 (= G310), D318 (= D311), M324 (= M317), L325 (= L318), A326 (= A319), H327 (= H320), Y357 (≠ F350), H450 (= H443), P451 (= P444)
- binding 1,4-dihydronicotinamide adenine dinucleotide: I186 (= I182), G189 (= G185), V190 (≠ Y186), I191 (= I187), E194 (= E190), E210 (= E206), A211 (= A207), L212 (= L208), A275 (≠ T269), V276 (= V270), G277 (= G271), R278 (= R272), M324 (= M317), L325 (= L318), V355 (= V348), Y357 (≠ F350)
Sites not aligning to the query:
5u8vA Dihydrolipoamide dehydrogenase (lpdg) from pseudomonas aeruginosa bound to NAD+ (see paper)
43% identity, 98% coverage: 8:464/464 of query aligns to 5:470/472 of 5u8vA
- active site: P12 (= P15), L43 (≠ A39), C47 (= C43), C52 (= C48), S55 (= S51), G81 (≠ A80), V82 (≠ P81), V189 (≠ Y186), E193 (= E190), S329 (≠ M323), F447 (≠ H441), H449 (= H443), E454 (= E448)
- binding flavin-adenine dinucleotide: I8 (≠ L11), G11 (= G14), P12 (= P15), G13 (= G16), E32 (= E35), G45 (= G41), T46 (= T42), C47 (= C43), G51 (= G47), C52 (= C48), K56 (= K52), H119 (≠ E118), G120 (= G119), A148 (= A146), S149 (≠ T147), G150 (= G148), S169 (= S166), I190 (= I187), R277 (= R272), G316 (= G310), D317 (= D311), M323 (= M317), L324 (= L318), A325 (= A319), H326 (= H320), H449 (= H443), P450 (= P444)
- binding nicotinamide-adenine-dinucleotide: I185 (= I182), G186 (= G183), G188 (= G185), V189 (≠ Y186), I190 (= I187), L208 (= L205), E209 (= E206), A210 (= A207), V243 (≠ T238), V275 (= V270), G276 (= G271)
Sites not aligning to the query:
2eq6A Crystal structure of lipoamide dehydrogenase from thermus thermophilus hb8
45% identity, 99% coverage: 5:464/464 of query aligns to 3:458/460 of 2eq6A
- active site: V37 (≠ A39), C41 (= C43), C46 (= C48), T49 (≠ S51), A176 (≠ Y186), E180 (= E190), H435 (= H441), H437 (= H443), E442 (= E448)
- binding flavin-adenine dinucleotide: I9 (≠ L11), G10 (= G12), G12 (= G14), P13 (= P15), G14 (= G16), E33 (= E35), A34 (≠ K36), G39 (= G41), V40 (≠ T42), C41 (= C43), G45 (= G47), C46 (= C48), K50 (= K52), F111 (≠ E118), A112 (≠ G119), A135 (= A146), T136 (= T147), G137 (= G148), S155 (= S166), R269 (≠ V275), D306 (= D311), L312 (≠ M317), L313 (= L318), A314 (= A319), H315 (= H320), Y344 (≠ F350)
Sites not aligning to the query:
P0A9P0 Dihydrolipoyl dehydrogenase; Dihydrolipoamide dehydrogenase; E3 component of pyruvate and 2-oxoglutarate dehydrogenases complexes; Glycine cleavage system L protein; EC 1.8.1.4 from Escherichia coli (strain K12) (see 2 papers)
40% identity, 97% coverage: 3:454/464 of query aligns to 4:456/474 of P0A9P0
- K220 (= K221) modified: N6-acetyllysine
Sites not aligning to the query:
- 1 modified: Initiator methionine, Removed
4jdrA Dihydrolipoamide dehydrogenase of pyruvate dehydrogenase from escherichia coli (see paper)
40% identity, 97% coverage: 3:454/464 of query aligns to 3:455/471 of 4jdrA
- active site: P15 (= P15), L40 (vs. gap), C44 (= C43), C49 (= C48), S52 (= S51), E77 (≠ A80), P78 (= P81), I184 (≠ Y186), E188 (= E190), V324 (≠ M323), H442 (= H441), H444 (= H443), E449 (= E448)
- binding flavin-adenine dinucleotide: G12 (= G12), G14 (= G14), P15 (= P15), A16 (≠ G16), E35 (= E35), R36 (≠ K36), Y37 (≠ A37), V43 (≠ T42), C44 (= C43), G48 (= G47), C49 (= C48), K53 (= K52), L115 (≠ E118), G116 (= G119), A144 (≠ T147), G145 (= G148), I185 (= I187), G311 (= G310), D312 (= D311), M318 (= M317), L319 (= L318), A320 (= A319), H321 (= H320)
Sites not aligning to the query:
6awaA 1.83 angstrom resolution crystal structure of dihydrolipoyl dehydrogenase from pseudomonas putida in complex with fad and adenosine-5'-monophosphate.
41% identity, 98% coverage: 8:464/464 of query aligns to 7:472/475 of 6awaA
- active site: L45 (≠ A39), C49 (= C43), C54 (= C48), S57 (= S51), V191 (≠ Y186), E195 (= E190), F449 (≠ H441), H451 (= H443), E456 (= E448)
- binding adenosine monophosphate: I187 (= I182), E211 (= E206), A212 (= A207), L213 (= L208), V245 (≠ T238), V277 (= V270)
- binding flavin-adenine dinucleotide: I10 (≠ L11), G13 (= G14), P14 (= P15), G15 (= G16), E34 (= E35), K35 (= K36), T48 (= T42), C49 (= C43), G53 (= G47), C54 (= C48), K58 (= K52), H121 (≠ E118), G122 (= G119), S151 (≠ T147), G152 (= G148), I192 (= I187), R279 (= R272), G318 (= G310), D319 (= D311), M325 (= M317), L326 (= L318), A327 (= A319), Y358 (≠ F350)
Sites not aligning to the query:
6uziC Crystal structure of dihydrolipoyl dehydrogenase from elizabethkingia anophelis nuhp1
40% identity, 98% coverage: 10:464/464 of query aligns to 11:470/470 of 6uziC
- active site: C45 (= C43), C50 (= C48), S53 (= S51), V187 (≠ Y186), E191 (= E190), H448 (= H443), E453 (= E448)
- binding flavin-adenine dinucleotide: I12 (≠ L11), G13 (= G12), G15 (= G14), P16 (= P15), G17 (= G16), E36 (= E35), K37 (= K36), G43 (= G41), T44 (= T42), C45 (= C43), G49 (= G47), C50 (= C48), S53 (= S51), K54 (= K52), V117 (≠ E118), G118 (= G119), T147 (= T147), G148 (= G148), I188 (= I187), R276 (= R272), D316 (= D311), M322 (= M317), L323 (= L318), A324 (= A319)
- binding zinc ion: H448 (= H443), E453 (= E448)
2yquB Crystal structures and evolutionary relationship of two different lipoamide dehydrogenase(e3s) from thermus thermophilus
42% identity, 98% coverage: 8:464/464 of query aligns to 4:455/455 of 2yquB
- active site: P11 (= P15), L36 (vs. gap), C40 (= C43), C45 (= C48), S48 (= S51), G72 (≠ A80), V73 (≠ P81), V177 (≠ Y186), E181 (= E190), S314 (≠ M323), H432 (= H441), H434 (= H443), E439 (= E448)
- binding carbonate ion: A310 (= A319), S314 (≠ M323), S423 (≠ R432), D426 (= D435)
- binding flavin-adenine dinucleotide: G8 (= G12), G10 (= G14), P11 (= P15), G12 (= G16), E31 (= E35), K32 (= K36), G38 (= G41), T39 (= T42), C40 (= C43), R42 (≠ N45), G44 (= G47), C45 (= C48), K49 (= K52), T110 (≠ E118), A111 (≠ G119), T137 (= T147), G138 (= G148), I178 (= I187), Y265 (≠ V275), G301 (= G310), D302 (= D311), M308 (= M317), L309 (= L318), A310 (= A319), H311 (= H320)
2yquA Crystal structures and evolutionary relationship of two different lipoamide dehydrogenase(e3s) from thermus thermophilus
42% identity, 98% coverage: 8:464/464 of query aligns to 4:455/455 of 2yquA
- active site: P11 (= P15), L36 (vs. gap), C40 (= C43), C45 (= C48), S48 (= S51), G72 (≠ A80), V73 (≠ P81), V177 (≠ Y186), E181 (= E190), S314 (≠ M323), H432 (= H441), H434 (= H443), E439 (= E448)
- binding flavin-adenine dinucleotide: G8 (= G12), G10 (= G14), P11 (= P15), G12 (= G16), E31 (= E35), K32 (= K36), G38 (= G41), T39 (= T42), C40 (= C43), R42 (≠ N45), G44 (= G47), C45 (= C48), K49 (= K52), T110 (≠ E118), A111 (≠ G119), T137 (= T147), G138 (= G148), S157 (= S166), I178 (= I187), Y265 (≠ V275), G301 (= G310), D302 (= D311), M308 (= M317), L309 (= L318), A310 (= A319)
Query Sequence
>SMc03204 SMc03204 dihydrolipoamide dehydrogenase
MKEISCKLLVLGAGPGGYVAAIRAGQLGVNTVIVEKAKAGGTCLNVGCIPSKALIHAADE
YHRLRAAASGKGPLGLSLSAPAIDLRRTIAWKDGIVGRLNGGVTGLLKKAGVKAVIGEGR
FVDGKTVDVETETGLQRIRAEAIVIATGSAPVELPDLPFGGSVISSTQALALTDVPQTLA
VIGGGYIGLELGTAFAKLGSKVTVLEALDRILPQYDADLSKPVMKRLGELGVEVFTRTAA
KRLSADRRGLLAEENGRAFEVPAEKVLVTVGRRPVTDGWGLEEIDLDHSGRFIRIDDQCR
TSMRGVYAIGDVTGEPMLAHRAMAQGEMVAEIVAGHKRSWDKRCIPAVCFTDPEIVGAGL
SPEEARAAGIDVKIGQFPFQANGRAMTTLSEDGFVRVIARADNHLVLGIQAVGHGVSELS
ATFALAIEMGARLEDIAGTIHAHPTQSEAFQEAALKTLGHALHI
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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