SMTL ID : 8qmz.4 (3 other biounits)

Soluble epoxide hydrolase in complex with RK4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.47 Å

Oligo State

monomer

Ligands

1 x W6O: (3~{a}~{R},6~{a}~{S})-~{N}-[(2,4-dichlorophenyl)methyl]-2-(4-methylphenyl)sulfonyl-3,3~{a},4,5,6,6~{a}-hexahydro-1~{H}-cyclopenta[c]pyrrole-5-carboxamide(Non-covalent)

W6O.1: 14 residues within 4Å: Chain A: F.70, D.138, W.139, Y.146, F.184, Y.186, Q.187, M.222, Y.269, V.301, L.302, H.327, W.328 Ligands: EDO.5 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.139, A:W.139, A:V.301, A:L.302, A:W.328 Hydrogen bonds: A:D.138, A:Y.186, A:Q.187 pi-Stacking: A:H.327

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 5 residues within 4Å: Chain A: S.34, C.35, N.36, M.40, P.82 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.36, A:N.36 Water bridges: A:D.39 EDO.3: 8 residues within 4Å: Chain A: L.220, S.221, G.230, L.231, F.232, V.233, N.234, S.235 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.221, A:S.221, A:N.234 EDO.4: 8 residues within 4Å: Chain A: P.37, H.42, H.54, W.74, D.95, E.101, F.252, Q.256 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.101, A:Q.256 Water bridges: A:Q.256, A:Q.256 EDO.5: 5 residues within 4Å: Chain A: L.211, S.218, L.220, W.328 Ligands: W6O.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.220 Water bridges: A:L.220 EDO.6: 4 residues within 4Å: Chain A: E.297, K.298, E.323, D.324 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.297, A:D.324, A:D.324

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, F. et al., Photosensitization enables Pauson-Khand-type reactions with nitrenes. Science (2024)

Release Date

2024-02-14

Peptides

Bifunctional epoxide hydrolase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Bifunctional epoxide hydrolase 2

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