SMTL ID : 3o3n.2 (1 other biounit)

(R)-2-hydroxyisocaproyl-CoA dehydratase in complex with its substrate (R)-2-hydroxyisocaproyl-CoA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-mer

Ligands

2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.1: 8 residues within 4Å: Chain A: E.55, C.84, Y.86, I.116, C.117, C.346, Q.375 Ligands: IRC.2 4 PLIP interactions: 4 interactions with chain A, Salt bridges: A:E.55 Metal complexes: A:C.84, A:C.117, A:C.346 SF4.3: 13 residues within 4Å: Chain B: C.72, I.74, M.75, C.99, T.101, L.102, I.237, L.293, M.322, C.325, D.326, P.327 Ligands: H2S.4 4 PLIP interactions: 4 interactions with chain B, Salt bridges: B:D.326 Metal complexes: B:C.72, B:C.99, B:C.325

1 x IRC: S-[2-[3-[[(2R)-4-[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-3-phosphonooxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl ]oxy-hydroxy-phosphoryl]oxy-2-hydroxy-3,3-dimethyl-butanoyl]amino]propanoylamino]ethyl] (2R)-2-hydroxy-4-methyl-pentanethioate(Non-covalent)

IRC.2: 23 residues within 4Å: Chain A: N.12, L.15, Y.19, V.38, E.55, N.56, A.59, G.60, K.64, Y.86, L.102, I.116, F.215, M.218, A.219, V.222, I.265, W.268, Y.290, W.294, M.313, F.314 Ligands: SF4.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.38, A:A.59, A:Y.290, A:W.294, A:W.294, A:F.314 Hydrogen bonds: A:E.55, A:N.56, A:T.216 Water bridges: A:Y.86, A:Y.86 Salt bridges: A:K.64

1 x H2S: HYDROSULFURIC ACID(Non-covalent)

H2S.4: 4 residues within 4Å: Chain B: P.35, V.36, I.237 Ligands: SF4.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Knauer, S.H. et al., Structural Basis for Reductive Radical Formation and Electron Recycling in (R)-2-Hydroxyisocaproyl-CoA Dehydratase. J.Am.Chem.Soc. (2011)

Release Date

2011-03-16

Peptides

alpha-subunit 2-hydroxyisocaproyl-CoA dehydratase: A
beta-subunit 2-hydroxyacyl-CoA dehydratase: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

alpha-subunit 2-hydroxyisocaproyl-CoA dehydratase

beta-subunit 2-hydroxyacyl-CoA dehydratase

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