SMTL ID : 5am0.1

ligand complex structure of soluble epoxide hydrolase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: D.336, W.337, M.340, Q.385, Y.467, L.500 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.385 Water bridges: A:D.336, A:Y.467 SO4.4: 2 residues within 4Å: Chain A: K.192, R.195 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.192, A:R.195 SO4.7: 6 residues within 4Å: Chain B: D.336, W.337, M.340, Q.385, Y.467, L.500 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.385 Water bridges: B:D.336, B:Y.467 SO4.10: 2 residues within 4Å: Chain B: K.192, R.195 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:K.192, B:R.195

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

DMS.2: 5 residues within 4Å: Chain A: L.229, R.441, M.442, V.443, T.444 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.447 DMS.3: 5 residues within 4Å: Chain A: K.145, F.148, D.149, F.150, L.151 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.145, A:K.145 DMS.5: 4 residues within 4Å: Chain A: L.191, T.201, I.202, L.203 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.201, A:L.203 DMS.8: 5 residues within 4Å: Chain B: L.229, R.441, M.442, V.443, T.444 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.277 Salt bridges: B:E.447 DMS.9: 5 residues within 4Å: Chain B: K.145, F.148, D.149, F.150, L.151 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Water bridges: A:D.323, B:K.145 DMS.11: 4 residues within 4Å: Chain B: L.191, T.201, I.202, L.203 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.203

2 x LWS: 7-fluoranyl-3,3-dimethyl-5-(1-methylpyrrol-2-yl)-1H-indol-2-one(Non-covalent)

LWS.6: 11 residues within 4Å: Chain A: F.268, Y.384, F.388, L.409, M.420, K.496, D.497, F.498, V.499, L.500, H.525 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.384, A:F.388, A:L.409, A:H.525 Hydrogen bonds: A:D.497, A:F.498, A:V.499 pi-Stacking: A:H.525 LWS.12: 11 residues within 4Å: Chain B: F.268, Y.384, F.388, L.409, M.420, K.496, D.497, F.498, V.499, L.500, H.525 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:Y.384, B:F.388, B:L.409, B:H.525 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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