SMTL ID : 5ak4.1

ligand complex structure of soluble epoxide hydrolase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

homo-dimer

Ligands

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1: 5 residues within 4Å: Chain A: K.145, F.148, D.149, F.150, L.151 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.145 DMS.2: 5 residues within 4Å: Chain A: L.229, Y.277, R.441, M.442, T.444 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.277 Salt bridges: A:E.447 DMS.6: 5 residues within 4Å: Chain B: K.145, F.148, D.149, F.150, L.151 1 PLIP interactions: 1 interactions with chain B Water bridges: B:K.145 DMS.7: 5 residues within 4Å: Chain B: L.229, Y.277, R.441, M.442, T.444 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:E.447

6 x GVG: 3-METHYL-4-PHENYL-1H-PYRAZOLE(Non-covalent)

GVG.3: 9 residues within 4Å: Chain A: F.268, D.336, Y.384, L.409, M.420, Y.467, V.499, H.525, W.526 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.268, A:L.409, A:H.525, A:W.526 Hydrogen bonds: A:Y.384 pi-Stacking: A:H.525, A:W.526, A:W.526 GVG.4: 10 residues within 4Å: Chain A: D.336, W.337, M.340, I.376, F.382, Y.384, Q.385, Y.467, M.470, L.500 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.337, A:W.337, A:M.340, A:I.376, A:F.382 Hydrogen bonds: A:D.336 pi-Stacking: A:W.337, A:Y.467 GVG.5: 10 residues within 4Å: Chain A: M.311, W.337, M.340, Y.344, A.366, P.372, M.470, N.473, W.474, A.477 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:M.311, A:W.337, A:Y.344, A:P.372, A:N.473, A:W.474, A:A.477 Water bridges: A:W.474 GVG.8: 9 residues within 4Å: Chain B: F.268, D.336, Y.384, L.409, M.420, Y.467, V.499, H.525, W.526 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.268, B:L.409, B:H.525, B:W.526 Hydrogen bonds: B:Y.384, B:Y.384 pi-Stacking: B:H.525, B:W.526, B:W.526 GVG.9: 10 residues within 4Å: Chain B: D.336, W.337, M.340, I.376, F.382, Y.384, Q.385, Y.467, M.470, L.500 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:W.337, B:W.337, B:M.340, B:I.376, B:F.382 Hydrogen bonds: B:D.336, B:Y.384 pi-Stacking: B:W.337, B:Y.467 GVG.10: 10 residues within 4Å: Chain B: M.311, W.337, M.340, Y.344, A.366, P.372, M.470, N.473, W.474, A.477 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:M.311, B:W.337, B:Y.344, B:P.372, B:N.473, B:W.474, B:A.477 Water bridges: B:W.474

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oster, L. et al., Successful Generation of Structural Information for Fragment-Based Drug Discovery. Drug Discov Today (2015)

Release Date

2015-05-13

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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