SMTL ID : 5akh.1

ligand complex structure of soluble epoxide hydrolase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 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, T.361, Q.385, L.500 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.385 Water bridges: A:D.336, A:D.336 SO4.2: 7 residues within 4Å: Chain A: L.229, Y.277, R.441, M.442, V.443, T.444, E.447 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.441 Water bridges: A:Y.277, A:Y.277 SO4.6: 6 residues within 4Å: Chain B: D.336, W.337, M.340, T.361, Q.385, L.500 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.361, B:Q.385 Water bridges: B:D.336, B:Y.467 SO4.7: 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, B:R.441

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

DMS.3: 4 residues within 4Å: Chain A: K.145, F.148, F.150, L.151 No protein-ligand interaction detected (PLIP) DMS.4: 5 residues within 4Å: Chain A: L.4, R.5, K.116, G.117, F.118 No protein-ligand interaction detected (PLIP) DMS.8: 4 residues within 4Å: Chain B: K.145, F.148, F.150, L.151 No protein-ligand interaction detected (PLIP) DMS.9: 5 residues within 4Å: Chain B: L.4, R.5, K.116, G.117, F.118 No protein-ligand interaction detected (PLIP)

2 x 6NM: 4-[5-[3-(trifluoromethyl)phenyl]-1H-pyrazol-4-yl]pyridine(Non-covalent)

6NM.5: 13 residues within 4Å: Chain A: F.268, D.336, Y.384, F.388, L.409, L.418, M.420, L.429, Y.467, D.497, V.499, H.525, W.526 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.268, A:H.525, A:W.526 Water bridges: A:Y.384, A:Y.384, A:L.418, A:F.498 pi-Stacking: A:Y.384, A:H.525 6NM.10: 13 residues within 4Å: Chain B: F.268, D.336, Y.384, F.388, L.409, L.418, M.420, L.429, Y.467, D.497, V.499, H.525, W.526 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.268, B:H.525, B:W.526 Water bridges: B:Y.384, B:L.418, B:F.498, B:H.525 pi-Stacking: B:Y.384, 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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