SMTL ID : 5am5.1

ligand complex structure of soluble epoxide hydrolase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.26 Å

Oligo State

homo-dimer

Ligands

6 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 No protein-ligand interaction detected (PLIP) DMS.2: 7 residues within 4Å: Chain A: L.229, Y.277, R.441, M.442, V.443, T.444, E.447 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Y.277 Salt bridges: A:E.447 DMS.3: 5 residues within 4Å: Chain A: D.336, W.337, M.340, Q.385 Ligands: 6NZ.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.385 Salt bridges: A:D.336 pi-Cation interactions: A:W.337, A:W.337 DMS.6: 5 residues within 4Å: Chain B: K.145, F.148, D.149, F.150, L.151 No protein-ligand interaction detected (PLIP) DMS.7: 7 residues within 4Å: Chain B: L.229, Y.277, R.441, M.442, V.443, T.444, E.447 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.277 Salt bridges: B:E.447 DMS.8: 5 residues within 4Å: Chain B: D.336, W.337, M.340, Q.385 Ligands: 6NZ.10 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.384, B:Q.385 Salt bridges: B:D.336 pi-Cation interactions: B:W.337, B:W.337

4 x 6NZ: 5-cyclohexyl-3-propyl-1H-pyridin-2-one(Non-covalent)

6NZ.4: 9 residues within 4Å: Chain A: F.268, Y.384, S.416, M.420, Y.467, D.497, F.498, V.499, H.525 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.268, A:Y.384 Hydrogen bonds: A:D.497, A:F.498, A:V.499 Water bridges: A:H.525 6NZ.5: 10 residues within 4Å: Chain A: W.337, Y.344, I.364, I.376, F.382, Q.385, M.470, N.473, A.477 Ligands: DMS.3 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.364, A:I.364, A:I.376, A:F.382, A:N.473, A:A.477 Hydrogen bonds: A:Q.385, A:N.473 6NZ.9: 9 residues within 4Å: Chain B: F.268, Y.384, S.416, M.420, Y.467, D.497, F.498, V.499, H.525 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.268, B:Y.384 Hydrogen bonds: B:D.497, B:F.498, B:V.499 Water bridges: B:H.525 6NZ.10: 10 residues within 4Å: Chain B: W.337, Y.344, I.364, I.376, F.382, Q.385, M.470, N.473, A.477 Ligands: DMS.8 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:I.364, B:I.364, B:I.376, B:F.382, B:N.473, B:A.477 Hydrogen bonds: B:Q.385, B:N.473

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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