SMTL ID : 1jqi.1

Crystal Structure of Rat Short Chain Acyl-CoA Dehydrogenase Complexed With Acetoacetyl-CoA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-tetramer

Ligands

4 x CAA: ACETOACETYL-COENZYME A(Non-covalent)

CAA.1: 23 residues within 4Å: Chain A: V.94, L.98, F.128, S.131, G.136, S.137, A.139, T.163, N.183, F.237, M.241, Q.242, L.244, D.245, R.248, T.318, Y.367, E.368, G.369, I.373, V.377 Chain B: F.276 Ligands: FAD.2 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.94, A:E.368, A:V.377, B:F.276 Hydrogen bonds: A:G.136, A:S.137, A:A.139, A:D.245, A:R.248, A:T.318, A:E.368 Water bridges: A:G.140, A:G.140 Salt bridges: A:K.184 CAA.3: 23 residues within 4Å: Chain A: F.276 Chain B: V.94, L.98, F.128, S.131, G.136, S.137, A.139, T.163, N.183, F.237, M.241, Q.242, L.244, D.245, R.248, T.318, Y.367, E.368, G.369, I.373, V.377 Ligands: FAD.4 17 PLIP interactions: 16 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.94, B:E.368, B:V.377, A:F.276 Hydrogen bonds: B:G.136, B:S.137, B:A.139, B:N.183, B:D.245, B:R.248, B:T.318, B:E.368 Water bridges: B:G.140, B:D.245, B:D.245, B:R.248 Salt bridges: B:K.184 CAA.5: 23 residues within 4Å: Chain C: V.94, L.98, F.128, S.131, G.136, S.137, A.139, T.163, N.183, F.237, M.241, Q.242, L.244, D.245, R.248, T.318, Y.367, E.368, G.369, I.373, V.377 Chain D: F.276 Ligands: FAD.6 13 PLIP interactions: 12 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:V.94, C:E.368, C:V.377, D:F.276 Hydrogen bonds: C:G.136, C:S.137, C:A.139, C:D.245, C:R.248, C:E.368 Water bridges: C:G.140, C:G.140 Salt bridges: C:K.184 CAA.7: 23 residues within 4Å: Chain C: F.276 Chain D: V.94, L.98, F.128, S.131, G.136, S.137, A.139, T.163, N.183, F.237, M.241, Q.242, L.244, D.245, R.248, T.318, Y.367, E.368, G.369, I.373, V.377 Ligands: FAD.8 14 PLIP interactions: 13 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:V.94, D:E.368, D:V.377, C:F.276 Hydrogen bonds: D:G.136, D:S.137, D:A.139, D:N.183, D:D.245, D:R.248, D:E.368 Water bridges: D:G.140, D:R.248 Salt bridges: D:K.184

4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.2: 29 residues within 4Å: Chain A: F.128, L.130, S.131, N.135, G.136, S.137, W.161, I.162, T.163, K.206, T.214, I.363, Y.367, E.368, T.370, E.372, I.373, L.376 Chain B: R.273, F.276, L.280, L.283, I.286, Q.341, I.342, G.344, G.345 Chain C: Q.284 Ligands: CAA.1 25 PLIP interactions: 7 interactions with chain B, 17 interactions with chain A, 1 interactions with chain C Hydrogen bonds: B:Q.341, B:G.345, A:F.128, A:L.130, A:S.131, A:S.131, A:S.137, A:S.137, A:T.163, A:T.163, A:E.368, A:T.370, A:T.370, C:Q.284 Water bridges: B:R.273, B:R.273, B:M.346, A:D.138 Salt bridges: B:R.273, B:R.273 Hydrophobic interactions: A:W.161, A:K.206, A:T.214, A:I.363 pi-Stacking: A:Y.367 FAD.4: 30 residues within 4Å: Chain A: R.273, F.276, L.280, L.283, I.286, Q.341, I.342, G.344, G.345 Chain B: F.128, L.130, S.131, N.135, G.136, S.137, W.161, I.162, T.163, K.206, T.214, I.363, I.366, Y.367, E.368, T.370, E.372, I.373, L.376 Chain D: Q.284 Ligands: CAA.3 28 PLIP interactions: 19 interactions with chain B, 8 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: B:W.161, B:K.206, B:T.214, B:I.363 Hydrogen bonds: B:F.128, B:L.130, B:S.131, B:S.131, B:G.136, B:S.137, B:S.137, B:T.163, B:T.163, B:E.368, B:T.370, B:T.370, A:Q.341, A:G.345, D:Q.284 Water bridges: B:D.138, B:T.370, A:R.273, A:R.273, A:M.346, A:M.346 pi-Stacking: B:Y.367 Salt bridges: A:R.273, A:R.273 FAD.6: 29 residues within 4Å: Chain A: Q.284 Chain C: F.128, L.130, S.131, N.135, G.136, S.137, W.161, I.162, T.163, K.206, T.214, I.363, Y.367, E.368, T.370, E.372, I.373, L.376 Chain D: R.273, F.276, L.280, L.283, I.286, Q.341, I.342, G.344, G.345 Ligands: CAA.5 24 PLIP interactions: 16 interactions with chain C, 7 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: C:W.161, C:K.206, C:T.214, C:I.363 Hydrogen bonds: C:F.128, C:L.130, C:S.131, C:S.131, C:S.137, C:S.137, C:T.163, C:E.368, C:T.370, C:E.372, D:Q.341, D:G.345, A:Q.284 Water bridges: C:D.138, D:R.273, D:R.273, D:M.346 pi-Stacking: C:Y.367 Salt bridges: D:R.273, D:R.273 FAD.8: 30 residues within 4Å: Chain B: Q.284 Chain C: R.273, F.276, L.280, L.283, I.286, Q.341, I.342, G.344, G.345 Chain D: F.128, L.130, S.131, N.135, G.136, S.137, W.161, I.162, T.163, K.206, T.214, I.363, I.366, Y.367, E.368, T.370, E.372, I.373, L.376 Ligands: CAA.7 27 PLIP interactions: 18 interactions with chain D, 8 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: D:W.161, D:K.206, D:T.214, D:I.363 Hydrogen bonds: D:F.128, D:L.130, D:S.131, D:S.131, D:G.136, D:S.137, D:S.137, D:T.163, D:E.368, D:T.370, D:E.372, C:Q.341, C:G.345, B:Q.284 Water bridges: D:D.138, D:T.370, C:R.273, C:R.273, C:M.346, C:M.346 pi-Stacking: D:Y.367 Salt bridges: C:R.273, C:R.273

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Battaile, K.P. et al., Crystal structure of rat short chain acyl-CoA dehydrogenase complexed with acetoacetyl-CoA: comparison with other acyl-CoA dehydrogenases. J.Biol.Chem. (2002)

Release Date

2002-02-13

Peptides

short chain acyl-CoA dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

short chain acyl-CoA dehydrogenase