SMTL ID : 4od0.1

Crystal structure of human soluble epoxide hydrolase complexed with 1-(1-propanoylpiperidin-4-yl)-3-[4-(trifluoromethoxy)phenyl]urea

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.92 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 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:L.10, A:D.11, A:T.123, A:N.124 Water bridges: A:D.9, A:D.11 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 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:L.10, B:D.11, B:N.124 Water bridges: B:D.9, B:D.11, B:D.11 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 2RV: 1-(1-propanoylpiperidin-4-yl)-3-[4-(trifluoromethoxy)phenyl]urea(Non-covalent)

2RV.3: 16 residues within 4Å: Chain A: F.267, D.335, W.336, M.339, T.360, Y.383, Q.384, F.387, L.408, L.417, M.419, L.428, Y.466, L.499, H.524, W.525 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.267, A:W.336, A:Y.383, A:W.525 Hydrogen bonds: A:D.335, A:D.335 2RV.6: 16 residues within 4Å: Chain B: F.267, D.335, W.336, M.339, T.360, Y.383, Q.384, F.387, L.408, L.417, M.419, L.428, Y.466, L.499, H.524, W.525 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:F.267, B:W.336, B:Y.383, B:W.525 Hydrogen bonds: B:D.335, B:D.335, B:Y.383, B:Y.466

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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