SMTL ID : 5aln.1

ligand complex structure of soluble epoxide hydrolase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

DMS.1: 5 residues within 4Å: Chain A: G.259, P.260, A.261, Q.329 Chain B: S.258 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.261 Water bridges: A:R.288 DMS.2: 5 residues within 4Å: Chain A: L.4, R.5, K.116, G.117, F.118 No protein-ligand interaction detected (PLIP) DMS.3: 1 residues within 4Å: Chain A: G.45 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.45 DMS.4: 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.5: 5 residues within 4Å: Chain A: K.145, F.148, D.149, F.150, L.151 No protein-ligand interaction detected (PLIP) DMS.8: 5 residues within 4Å: Chain A: S.258 Chain B: G.259, P.260, A.261, Q.329 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.261 Water bridges: B:R.288 DMS.9: 5 residues within 4Å: Chain B: L.4, R.5, K.116, G.117, F.118 No protein-ligand interaction detected (PLIP) DMS.10: 1 residues within 4Å: Chain B: G.45 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.45 DMS.11: 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.12: 5 residues within 4Å: Chain B: K.145, F.148, D.149, F.150, L.151 No protein-ligand interaction detected (PLIP)

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.6: 4 residues within 4Å: Chain A: D.336, W.337, Q.385, Y.467 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.336, A:Q.385 Water bridges: A:Q.385 SO4.13: 4 residues within 4Å: Chain B: D.336, W.337, Q.385, Y.467 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.336, B:Q.385 Water bridges: B:Q.385, B:Y.467

2 x 5ZM: 5-(4-FLUOROPHENYL)-3,3-DIMETHYL-INDOLIN-2-ONE(Non-covalent)

5ZM.7: 12 residues within 4Å: Chain A: F.268, Y.384, F.388, L.409, M.420, L.429, K.496, D.497, F.498, V.499, H.525, W.526 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.268, A:L.409, A:V.499, A:W.526 Hydrogen bonds: A:D.497, A:F.498, A:V.499 pi-Stacking: A:H.525 5ZM.14: 12 residues within 4Å: Chain B: F.268, Y.384, F.388, L.409, M.420, L.429, K.496, D.497, F.498, V.499, H.525, W.526 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.268, B:L.409, B:V.499, B:W.526 Hydrogen bonds: B:D.497, B:D.497, B:F.498, B:V.499 pi-Stacking: B:H.525

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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