SitesBLAST
Comparing GFF3996 FitnessBrowser__Marino:GFF3996 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)
3gqtC Crystal structure of glutaryl-coa dehydrogenase from burkholderia pseudomallei with fragment (1,4-dimethyl-1,2,3,4- tetrahydroquinoxalin-6-yl)methylamine (see paper)
65% identity, 99% coverage: 2:388/389 of query aligns to 1:385/385 of 3gqtC
- active site: L135 (= L136), T136 (= T137), A250 (= A247), E365 (= E368), R377 (= R380)
- binding 1-(1,4-dimethyl-1,2,3,4-tetrahydroquinoxalin-6-yl)methanamine: W166 (= W167), K210 (= K208), L213 (= L211), T218 (= T216), Y364 (= Y367)
3gncA Crystal structure of glutaryl-coa dehydrogenase from burkholderia pseudomallei with fragment 6421 (see paper)
65% identity, 99% coverage: 2:387/389 of query aligns to 2:380/380 of 3gncA
3eonC 2.55a crystal structure of native glutaryl-coa dehydrogenase from burkholderia pseudomallei in complex with a small molecule (see paper)
65% identity, 99% coverage: 2:387/389 of query aligns to 1:382/382 of 3eonC
2r0nA The effect of a glu370asp mutation in glutaryl-coa dehydrogenase on proton transfer to the dienolate intermediate (see paper)
64% identity, 99% coverage: 6:389/389 of query aligns to 4:389/390 of 2r0nA
- active site: L133 (= L136), T134 (= T137), A247 (= A247), E368 (= E368), R380 (= R380)
- binding flavin-adenine dinucleotide: F131 (= F134), L133 (= L136), T134 (= T137), G139 (= G142), S140 (= S143), W166 (= W167), I167 (= I168), T168 (= T169), Y367 (= Y367), T370 (= T370), D372 (= D372)
- binding 3-thiaglutaryl-CoA: R92 (= R95), S93 (= S96), V97 (= V100), P142 (= P145), G238 (≠ K238), F241 (= F241), L244 (= L244), N245 (= N245), P318 (= P318), Y367 (= Y367), E368 (= E368), I377 (= I377)
1sirA The crystal structure and mechanism of human glutaryl-coa dehydrogenase (see paper)
64% identity, 99% coverage: 6:389/389 of query aligns to 4:389/390 of 1sirA
- active site: L133 (= L136), T134 (= T137), A247 (= A247), E368 (= E368), R380 (= R380)
- binding flavin-adenine dinucleotide: F131 (= F134), L133 (= L136), T134 (= T137), G139 (= G142), S140 (= S143), W166 (= W167), I167 (= I168), T168 (= T169), Y367 (= Y367), T370 (= T370)
- binding s-4-nitrobutyryl-coa: S93 (= S96), S140 (= S143), F241 (= F241), G242 (≠ S242), L244 (= L244), N245 (= N245), R248 (= R248), P318 (= P318), Y367 (= Y367), E368 (= E368), R380 (= R380)
2r0mA The effect of a glu370asp mutation in glutaryl-coa dehydrogenase on proton transfer to the dienolate intermediate (see paper)
64% identity, 99% coverage: 6:389/389 of query aligns to 4:389/390 of 2r0mA
- active site: L133 (= L136), T134 (= T137), A247 (= A247), D368 (≠ E368), R380 (= R380)
- binding 4-nitrobutanoic acid: L101 (= L104), Y367 (= Y367), D368 (≠ E368)
- binding flavin-adenine dinucleotide: F131 (= F134), L133 (= L136), T134 (= T137), G139 (= G142), S140 (= S143), W166 (= W167), I167 (= I168), T168 (= T169), L210 (= L211), Y367 (= Y367), T370 (= T370)
3d6bC 2.2 a crystal structure of glutaryl-coa dehydrogenase from burkholderia pseudomallei (see paper)
64% identity, 99% coverage: 2:387/389 of query aligns to 1:377/377 of 3d6bC
2ebaA Crystal structure of the putative glutaryl-coa dehydrogenase from thermus thermophilus
49% identity, 98% coverage: 8:388/389 of query aligns to 3:380/380 of 2ebaA
- active site: L131 (= L136), T132 (= T137), A239 (= A247), E360 (= E368), R372 (= R380)
- binding flavin-adenine dinucleotide: L131 (= L136), T132 (= T137), G136 (≠ H141), G137 (= G142), S138 (= S143), W161 (= W167), T163 (= T169), R265 (= R273), L272 (= L280), K275 (≠ N283), D333 (= D341), I334 (≠ M342), G337 (= G345), T355 (≠ A363), T358 (= T366), Y359 (= Y367), T362 (= T370)
3sf6A Crystal structure of glutaryl-coa dehydrogenase from mycobacterium smegmatis (see paper)
46% identity, 98% coverage: 7:388/389 of query aligns to 5:386/387 of 3sf6A
- active site: L134 (= L136), T135 (= T137), A245 (= A247), E366 (= E368), Q378 (≠ R380)
- binding dihydroflavine-adenine dinucleotide: F132 (= F134), L134 (= L136), T135 (= T137), G140 (= G142), S141 (= S143), W165 (= W167), I166 (= I168), T167 (= T169), S361 (≠ A363), T364 (= T366), Y365 (= Y367), T368 (= T370), E370 (≠ D372), M371 (≠ V373)
3swoA Crystal structure of a glutaryl-coa dehydrogenase from mycobacterium smegmatis in complex with fadh2 (see paper)
44% identity, 98% coverage: 8:388/389 of query aligns to 8:387/388 of 3swoA
- active site: L135 (= L136), T136 (= T137), A246 (= A247), E367 (= E368), K379 (≠ R380)
- binding dihydroflavine-adenine dinucleotide: F133 (= F134), L135 (= L136), T136 (= T137), G141 (= G142), S142 (= S143), W166 (= W167), I167 (= I168), T168 (= T169), R272 (= R273), V274 (≠ Q275), F275 (= F276), L279 (= L280), Y282 (≠ N283), T340 (≠ D341), L341 (≠ M342), G344 (= G345), I347 (= I348), T365 (= T366), Y366 (= Y367), T369 (= T370), E371 (≠ D372), M372 (≠ V373)
2ix5A Short chain specific acyl-coa oxidase from arabidopsis thaliana, acx4 in complex with acetoacetyl-coa (see paper)
36% identity, 98% coverage: 7:388/389 of query aligns to 30:412/415 of 2ix5A
- active site: L158 (= L136), T159 (= T137), S271 (≠ A247), E392 (= E368), R404 (= R380)
- binding acetoacetyl-coenzyme a: S165 (= S143), A167 (≠ P145), S168 (= S146), F261 (≠ L237), L268 (= L244), R272 (= R248), E392 (= E368), G393 (= G369), R404 (= R380)
- binding flavin-adenine dinucleotide: L158 (= L136), T159 (= T137), G164 (= G142), S165 (= S143), W189 (= W167), N239 (≠ T216), R297 (= R273), F300 (= F276), L304 (= L280), F307 (≠ N283), L309 (= L285), N310 (≠ I286), E365 (≠ D341), L366 (≠ M342), G368 (= G344), G369 (= G345), Y391 (= Y367), T394 (= T370), D396 (= D372), I397 (≠ V373)
2ix6A Short chain specific acyl-coa oxidase from arabidopsis thaliana, acx4 (see paper)
36% identity, 98% coverage: 7:388/389 of query aligns to 30:412/416 of 2ix6A
- active site: L158 (= L136), T159 (= T137), S271 (≠ A247), E392 (= E368), R404 (= R380)
- binding flavin-adenine dinucleotide: T159 (= T137), G164 (= G142), S165 (= S143), W189 (= W167), N239 (≠ T216), R297 (= R273), F300 (= F276), L304 (= L280), F307 (≠ N283), N310 (≠ I286), E365 (≠ D341), L366 (≠ M342), G369 (= G345), I372 (= I348), Y391 (= Y367), T394 (= T370), D396 (= D372)
Q96329 Acyl-coenzyme A oxidase 4, peroxisomal; AOX 4; G6p; Short-chain acyl-CoA oxidase; AtCX4; AtG6; SAOX; EC 1.3.3.6 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
36% identity, 98% coverage: 7:388/389 of query aligns to 46:428/436 of Q96329
2dvlA Crystal structure of project tt0160 from thermus thermophilus hb8
35% identity, 94% coverage: 16:380/389 of query aligns to 1:366/370 of 2dvlA
- active site: L121 (= L136), T122 (= T137), G233 (≠ A247), E354 (= E368), R366 (= R380)
- binding flavin-adenine dinucleotide: L121 (= L136), T122 (= T137), G127 (= G142), S128 (= S143), W152 (= W167), I153 (= I168), T154 (= T169), T356 (= T370), E358 (≠ D372)
4n5fA Crystal structure of a putative acyl-coa dehydrogenase with bound fadh2 from burkholderia cenocepacia j2315
35% identity, 95% coverage: 12:380/389 of query aligns to 2:376/378 of 4n5fA
- active site: L126 (= L136), T127 (= T137), G243 (≠ A247), E364 (= E368), R376 (= R380)
- binding dihydroflavine-adenine dinucleotide: L126 (= L136), T127 (= T137), G132 (= G142), S133 (= S143), F157 (≠ W167), T159 (= T169), T210 (= T216), Y363 (= Y367), T366 (= T370), E368 (≠ D372), M372 (≠ L376)
4l1fA Electron transferring flavoprotein of acidaminococcus fermentans: towards a mechanism of flavin-based electron bifurcation (see paper)
33% identity, 95% coverage: 13:380/389 of query aligns to 2:375/380 of 4l1fA
- active site: L125 (= L136), T126 (= T137), G242 (≠ A247), E363 (= E368), R375 (= R380)
- binding coenzyme a persulfide: T132 (≠ S143), H179 (vs. gap), F232 (≠ L237), M236 (≠ F241), E237 (≠ S242), L239 (= L244), D240 (≠ N245), R243 (= R248), Y362 (= Y367), E363 (= E368), G364 (= G369), R375 (= R380)
- binding flavin-adenine dinucleotide: F123 (= F134), L125 (= L136), T126 (= T137), G131 (= G142), T132 (≠ S143), F156 (≠ W167), I157 (= I168), T158 (= T169), R268 (= R273), Q270 (= Q275), F271 (= F276), I275 (≠ L280), F278 (≠ N283), L281 (≠ I286), Q336 (≠ D341), I337 (≠ M342), G340 (= G345), I358 (≠ A363), Y362 (= Y367), T365 (= T370), Q367 (≠ D372)
- binding 1,3-propandiol: L5 (= L16), Q10 (≠ R21)
5lnxD Crystal structure of mmgc, an acyl-coa dehydrogenase from bacillus subtilis.
33% identity, 92% coverage: 23:380/389 of query aligns to 9:370/374 of 5lnxD
- active site: L122 (= L136), T123 (= T137), G239 (≠ A247), E358 (= E368), K370 (≠ R380)
- binding flavin-adenine dinucleotide: L122 (= L136), T123 (= T137), G128 (= G142), S129 (= S143), F153 (≠ W167), T155 (= T169), R265 (= R273), Q267 (= Q275), F268 (= F276), I272 (≠ L280), N275 (= N283), I278 (= I286), Q331 (≠ D341), I332 (≠ M342), G335 (= G345), Y357 (= Y367), T360 (= T370), E362 (≠ D372)
5ol2F The electron transferring flavoprotein/butyryl-coa dehydrogenase complex from clostridium difficile (see paper)
34% identity, 90% coverage: 29:378/389 of query aligns to 17:372/378 of 5ol2F
- active site: L124 (= L136), T125 (= T137), G241 (≠ A247)
- binding calcium ion: E29 (= E41), E33 (≠ H45), R35 (≠ K47)
- binding coenzyme a persulfide: L238 (= L244), R242 (= R248), E362 (= E368), G363 (= G369)
- binding flavin-adenine dinucleotide: F122 (= F134), L124 (= L136), T125 (= T137), P127 (= P139), T131 (≠ S143), F155 (≠ W167), I156 (= I168), T157 (= T169), E198 (≠ Q206), R267 (= R273), F270 (= F276), L274 (= L280), F277 (≠ N283), Q335 (≠ D341), L336 (≠ M342), G338 (= G344), G339 (= G345), Y361 (= Y367), T364 (= T370), E366 (≠ D372)
Sites not aligning to the query:
C3UVB0 Glutaryl-CoA dehydrogenase; GDH(Des); EC 1.3.99.32 from Desulfococcus multivorans (see paper)
32% identity, 96% coverage: 13:386/389 of query aligns to 2:385/389 of C3UVB0
- A80 (≠ E88) mutation to E: Loses the FAD cofactor and dehydrogenase activity.
- R87 (= R95) binding
- V88 (≠ S96) mutation to S: A residual dehydrogenase activity is observed.
- N91 (≠ S99) binding
- FGIT 126:129 (≠ FGLT 134:137) binding
- S135 (= S143) binding ; binding
- WIS 159:161 (≠ WIT 167:169) binding
- S181 (vs. gap) binding
- R271 (= R273) binding
- FQMN 281:284 (≠ NQLI 283:286) binding
- R340 (≠ D341) binding
- A344 (≠ G345) binding
- V366 (≠ Y367) mutation to Y: Loses the FAD cofactor but a residual dehydrogenase activity is observed.
- EGSAN 367:371 (≠ EGTHD 368:372) binding
- R385 (≠ Q386) binding
3mpjB Structure of the glutaryl-coenzyme a dehydrogenase (see paper)
32% identity, 96% coverage: 12:386/389 of query aligns to 1:385/393 of 3mpjB
- active site: I128 (≠ L136), T129 (= T137), T245 (≠ A247), E367 (= E368), L379 (≠ R380)
- binding flavin-adenine dinucleotide: F126 (= F134), I128 (≠ L136), T129 (= T137), G134 (= G142), S135 (= S143), W159 (= W167), I160 (= I168), S161 (≠ T169), V366 (≠ Y367), S369 (≠ T370), N371 (≠ D372), M375 (≠ L376)
- binding : H36 (≠ K47), F37 (= F48), Y39 (vs. gap), A164 (≠ P172), Q165 (≠ I173), D167 (= D175), N193 (≠ G196)
Query Sequence
>GFF3996 FitnessBrowser__Marino:GFF3996
MASAPWNDLLGFDAQLDETERQVRDSIRSFCDEQLMPGITEANRHEKFDRSIFNQMGELG
MLGATLPEEYGGPGLNHVCYGLIAREVERVDSAYRSALSVQSSLVMYPIYSYGKEAMKKR
ILPKLASGEYVGCFGLTEPNHGSDPSGMETRAKKVDGGYLLSGSKTWITNSPIADVCVVW
AKLDGKVNGFVIEREGATGLETPKIQGKFSLRASETGSIFMDEVFVPDENHLEVEGLKGP
FSCLNKARFGISWGSLGAAEFCWHAARNYTLERKQFGKPLAANQLIQKKLVDMQTEITIG
LQAVLQLGRMMDAGTVTPDAISLLKRNNCGKALDIARVARDMHGGNGIADEYHVIRHVMN
LEAVNTYEGTHDVHALILGRGQTGIQAFS
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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