SMTL ID : 8zrw.1

Structure of human ECHS1 in complex with Octanoyl-CoA

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-hexamer

Ligands

6 x CO8: OCTANOYL-COENZYME A(Non-covalent)

CO8.1: 22 residues within 4Å: Chain A: K.29, A.30, L.31, A.69, G.70, A.71, D.72, I.73, L.90, W.93, Y.110, F.112, G.114, E.117, P.136, E.137, I.140, G.145, R.170 Chain C: K.233, F.252, K.255 16 PLIP interactions: 13 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:L.31, A:L.90, A:W.93, A:W.93, A:F.112, A:F.112, A:P.136 Hydrogen bonds: A:A.71, A:A.71, A:D.72, A:I.73, A:G.114 Salt bridges: A:K.74, C:K.255 pi-Stacking: C:F.252, C:F.252 CO8.3: 23 residues within 4Å: Chain A: K.233, F.236, F.252, K.255 Chain B: K.29, A.30, L.31, A.69, A.71, D.72, I.73, K.74, L.90, W.93, Y.110, F.112, G.114, E.117, P.136, E.137, I.140, G.145, R.170 18 PLIP interactions: 6 interactions with chain A, 12 interactions with chain B Hydrophobic interactions: A:K.233, A:F.236, A:F.236, B:L.31, B:L.90, B:L.90, B:W.93, B:F.112, B:P.136 Salt bridges: A:K.255, B:K.74 pi-Stacking: A:F.252, A:F.252 Hydrogen bonds: B:A.71, B:A.71, B:D.72, B:I.73, B:G.114 CO8.4: 21 residues within 4Å: Chain B: F.252, K.255 Chain C: K.29, A.30, L.31, A.69, G.70, A.71, D.72, I.73, L.90, W.93, Y.110, F.112, G.114, E.117, P.136, E.137, I.140, G.145, R.170 15 PLIP interactions: 4 interactions with chain B, 11 interactions with chain C Salt bridges: B:K.255, B:K.255 pi-Stacking: B:F.252, B:F.252 Hydrophobic interactions: C:L.90, C:L.90, C:W.93, C:F.112, C:F.112, C:P.136 Hydrogen bonds: C:A.71, C:A.71, C:D.72, C:I.73, C:G.114 CO8.5: 24 residues within 4Å: Chain D: K.29, A.30, L.31, A.69, A.71, D.72, I.73, K.74, L.90, W.93, Y.110, F.112, G.114, E.117, P.136, E.137, I.140, I.143, G.145, R.170 Chain F: K.233, F.236, F.252, K.255 18 PLIP interactions: 6 interactions with chain F, 12 interactions with chain D Hydrophobic interactions: F:K.233, F:F.236, D:L.31, D:A.71, D:L.90, D:W.93, D:F.112, D:F.112, D:P.136 Salt bridges: F:K.255, F:K.255, D:K.74 pi-Stacking: F:F.252, F:F.252 Hydrogen bonds: D:A.69, D:A.71, D:I.73, D:E.137 CO8.6: 22 residues within 4Å: Chain D: K.233, F.236, F.252, K.255 Chain E: K.29, A.30, L.31, A.69, G.70, A.71, D.72, I.73, K.74, W.93, Y.110, F.112, G.114, E.117, P.136, E.137, G.145, R.170 16 PLIP interactions: 12 interactions with chain E, 4 interactions with chain D Hydrophobic interactions: E:W.93, E:F.112, E:P.136, D:F.236 Hydrogen bonds: E:A.69, E:A.69, E:A.71, E:A.71, E:I.73, E:K.74, E:G.114, E:E.137 Salt bridges: E:K.74, D:K.255 pi-Stacking: D:F.252, D:F.252 CO8.8: 21 residues within 4Å: Chain E: F.236, Y.237, F.252, K.255 Chain F: K.29, A.30, L.31, A.69, G.70, A.71, D.72, I.73, L.90, Y.110, F.112, G.114, E.117, P.136, E.137, G.145, R.170 14 PLIP interactions: 4 interactions with chain E, 10 interactions with chain F Hydrophobic interactions: E:F.236, F:L.31, F:F.112, F:F.112, F:P.136 Salt bridges: E:K.255 pi-Stacking: E:F.252, E:F.252 Hydrogen bonds: F:A.69, F:A.71, F:A.71, F:I.73, F:G.114, F:E.137

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: A.179 Chain B: A.179 Chain C: A.179 No protein-ligand interaction detected (PLIP) MG.7: 3 residues within 4Å: Chain D: A.179 Chain E: A.179 Chain F: A.179 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Su, G. et al., Structural and biochemical mechanism of short-chain enoyl-CoA hydratase (ECHS1) substrate recognition. Commun Biol (2025)

Release Date

2025-04-30

Peptides

Enoyl-CoA hydratase, mitochondrial: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Enoyl-CoA hydratase, mitochondrial

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