SMTL ID : 6i5g.1

X-ray structure of human soluble Epoxide Hydrolase C-terminal Domain (hsEH CTD)in complex with 15d-PGJ2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 8 residues within 4Å: Chain A: E.58, S.62, R.64, H.123, W.314, T.315, Q.316, M.317 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.58, A:S.62, A:R.64 Water bridges: A:Q.316 EDO.2: 6 residues within 4Å: Chain A: L.39, M.82, K.83, L.102, E.105, M.106 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.83, A:E.105 EDO.3: 8 residues within 4Å: Chain A: E.58, S.59, W.60, D.81, Y.85, G.86, Q.242, F.243 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.59, A:G.86 Water bridges: A:Q.242 EDO.4: 3 residues within 4Å: Chain A: P.179, G.180, R.249 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.179, A:R.249 Water bridges: A:G.180 EDO.5: 4 residues within 4Å: Chain A: N.257, M.258, E.259, R.260 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.259, A:R.260 Water bridges: A:R.256, A:M.258 EDO.6: 3 residues within 4Å: Chain A: V.107, E.139, R.140 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.139, A:R.140 EDO.8: 6 residues within 4Å: Chain B: L.39, M.82, K.83, L.102, E.105, M.106 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.83, B:L.102 EDO.9: 9 residues within 4Å: Chain A: S.27, H.28, G.29, F.41, E.43 Chain B: S.27, G.29, F.41, E.43 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.43, A:E.43 EDO.10: 7 residues within 4Å: Chain B: A.134, L.135, P.138, K.272, I.273, L.274, I.275 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.135, B:L.274, B:I.275 EDO.11: 7 residues within 4Å: Chain B: H.28, H.40, W.60, D.81, E.87, F.238, Q.242 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.87, B:Q.242, B:Q.242 Water bridges: B:E.87, B:E.87 EDO.12: 4 residues within 4Å: Chain B: K.104, V.107, T.108, Y.137 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.108 EDO.13: 3 residues within 4Å: Chain B: S.46, G.47, G.74 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.74

2 x PTG: (5E,14E)-11-oxoprosta-5,9,12,14-tetraen-1-oic acid(Non-covalent)

PTG.7: 13 residues within 4Å: Chain A: F.56, F.176, L.197, S.201, S.204, L.206, M.208, K.284, D.285, F.286, V.287, H.313, W.314 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.56, A:F.176, A:L.197, A:L.206, A:F.286, A:V.287, A:H.313, A:W.314 Hydrogen bonds: A:D.285, A:F.286, A:H.313 PTG.14: 13 residues within 4Å: Chain B: F.56, Y.172, F.176, L.197, S.201, S.204, L.206, M.208, K.284, D.285, F.286, V.287, H.313 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.56, B:Y.172, B:F.176, B:L.197, B:L.206, B:F.286, B:V.287, B:H.313 Hydrogen bonds: B:D.285, B:F.286, B:H.313

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abis, G. et al., 15-deoxy-Delta12,14-Prostaglandin J2inhibits human soluble epoxide hydrolase by a dual orthosteric and allosteric mechanism. Commun Biol (2019)

Release Date

2019-05-29

Peptides

Bifunctional epoxide hydrolase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bifunctional epoxide hydrolase 2

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