SMTL ID : 1siq.1

The Crystal Structure and Mechanism of Human Glutaryl-CoA Dehydrogenase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-tetramer

Ligands

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

FAD.1: 28 residues within 4Å: Chain A: F.131, L.133, T.134, G.139, S.140, W.166, I.167, T.168, L.210, Y.367, E.368, T.370, D.372, I.373, F.388 Chain C: Q.284 Chain D: R.273, Q.275, F.276, L.280, N.283, I.286, D.341, M.342, L.343, G.344, G.345, I.348 26 PLIP interactions: 16 interactions with chain A, 9 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: A:W.166, A:L.210, A:Y.367, D:I.348 Hydrogen bonds: A:F.131, A:L.133, A:T.134, A:T.134, A:T.168, A:T.168, A:E.368, A:T.370, A:T.370, A:F.388, D:N.283, D:D.341, D:G.345, C:Q.284 Water bridges: A:F.131, A:H.371, D:R.273, D:K.289, D:N.346 pi-Stacking: A:Y.367 Salt bridges: D:R.273, D:R.273 FAD.2: 28 residues within 4Å: Chain B: F.131, L.133, T.134, G.139, S.140, W.166, I.167, T.168, L.210, Y.367, E.368, T.370, D.372, I.373, F.388 Chain C: R.273, Q.275, F.276, L.280, N.283, I.286, D.341, M.342, L.343, G.344, G.345, I.348 Chain D: Q.284 26 PLIP interactions: 16 interactions with chain B, 9 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: B:W.166, B:L.210, B:Y.367, C:I.348 Hydrogen bonds: B:F.131, B:L.133, B:T.134, B:T.134, B:T.168, B:T.168, B:E.368, B:T.370, B:T.370, B:F.388, C:N.283, C:D.341, C:G.345, D:Q.284 Water bridges: B:F.131, B:H.371, C:R.273, C:K.289, C:N.346 pi-Stacking: B:Y.367 Salt bridges: C:R.273, C:R.273 FAD.3: 28 residues within 4Å: Chain A: Q.284 Chain B: R.273, Q.275, F.276, L.280, N.283, I.286, D.341, M.342, L.343, G.344, G.345, I.348 Chain C: F.131, L.133, T.134, G.139, S.140, W.166, I.167, T.168, L.210, Y.367, E.368, T.370, D.372, I.373, F.388 26 PLIP interactions: 10 interactions with chain B, 15 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: B:I.348, C:W.166, C:L.210, C:Y.367 Hydrogen bonds: B:N.283, B:D.341, B:G.345, C:F.131, C:L.133, C:T.134, C:T.134, C:T.168, C:E.368, C:T.370, C:F.388, A:Q.284 Water bridges: B:Y.269, B:R.273, B:K.289, B:N.346, C:F.131, C:H.371, C:D.372 Salt bridges: B:R.273, B:R.273 pi-Stacking: C:Y.367 FAD.4: 28 residues within 4Å: Chain A: R.273, Q.275, F.276, L.280, N.283, I.286, D.341, M.342, L.343, G.344, G.345, I.348 Chain B: Q.284 Chain D: F.131, L.133, T.134, G.139, S.140, W.166, I.167, T.168, L.210, Y.367, E.368, T.370, D.372, I.373, F.388 26 PLIP interactions: 10 interactions with chain A, 15 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: A:I.348, D:W.166, D:L.210, D:Y.367 Hydrogen bonds: A:N.283, A:D.341, A:G.345, D:F.131, D:L.133, D:T.134, D:T.134, D:T.168, D:E.368, D:T.370, D:F.388, B:Q.284 Water bridges: A:Y.269, A:R.273, A:K.289, A:N.346, D:F.131, D:H.371, D:D.372 Salt bridges: A:R.273, A:R.273 pi-Stacking: D:Y.367

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fu, Z. et al., Crystal Structures of Human Glutaryl-CoA Dehydrogenase with and without an Alternate Substrate: Structural Bases of Dehydrogenation and Decarboxylation Reactions. Biochemistry (2004)

Release Date

2004-09-07

Peptides

Glutaryl-CoA dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Glutaryl-CoA dehydrogenase