SMTL ID : 4ocz.1

Crystal structure of human soluble epoxide hydrolase complexed with 1-(1-isobutyrylpiperidin-4-yl)-3-(4-(trifluoromethyl)phenyl)urea

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.94 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 8 residues within 4Å: Chain A: D.9, L.10, D.11, T.123, N.124, K.160, D.185 Ligands: MG.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:L.10, A:D.11, A:T.123, A:N.124 Water bridges: A:N.189 Salt bridges: A:K.160 PO4.4: 8 residues within 4Å: Chain B: D.9, L.10, D.11, T.123, N.124, K.160, D.185 Ligands: MG.5 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:L.10, B:D.11, B:N.124 Water bridges: B:D.11, B:N.189 Salt bridges: B:K.160

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.9, D.11, D.185 Ligands: PO4.1 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.9, A:D.11, A:D.185, H2O.1, H2O.1 MG.5: 4 residues within 4Å: Chain B: D.9, D.11, D.185 Ligands: PO4.4 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.9, B:D.11, B:D.185, H2O.1, H2O.1

2 x 2RU: 1-[1-(2-methylpropanoyl)piperidin-4-yl]-3-[4-(trifluoromethyl)phenyl]urea(Non-covalent)

2RU.3: 13 residues within 4Å: Chain A: F.267, D.335, W.336, M.339, T.360, I.363, Y.383, F.387, L.408, L.428, Y.466, M.503, H.524 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.267, A:I.363, A:Y.383 Hydrogen bonds: A:D.335, A:D.335 pi-Stacking: A:F.267 2RU.6: 13 residues within 4Å: Chain B: F.267, D.335, W.336, M.339, T.360, I.363, Y.383, F.387, L.408, L.428, Y.466, M.503, H.524 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:F.267, B:I.363, B:Y.383 Hydrogen bonds: B:D.335, B:D.335, B:Y.383, B:Y.466 pi-Stacking: B:F.267

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, K.S. et al., Optimized inhibitors of soluble epoxide hydrolase improve in vitro target residence time and in vivo efficacy. J.Med.Chem. (2014)

Release Date

2014-09-24

Peptides

Bifunctional epoxide hydrolase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Bifunctional epoxide hydrolase 2

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