SMTL ID : 5aly.1

ligand complex structure of soluble epoxide hydrolase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: D.336, W.337, M.340, Q.385, L.500 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.336, A:Q.385, A:Q.385 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:M.442 Water bridges: A:Y.277, A:Y.277 SO4.9: 5 residues within 4Å: Chain B: D.336, W.337, M.340, Q.385, L.500 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.336, B:Q.385, B:Q.385 Water bridges: B:Y.467 SO4.10: 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:M.442

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

DMS.3: 5 residues within 4Å: Chain A: K.145, F.148, D.149, F.150, L.151 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.145 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.5: 4 residues within 4Å: Chain A: Y.344, A.366, W.474, A.477 1 PLIP interactions: 1 interactions with chain A Water bridges: A:W.474 DMS.6: 5 residues within 4Å: Chain A: P.34, R.35, G.36, L.37, D.40 No protein-ligand interaction detected (PLIP) DMS.7: 3 residues within 4Å: Chain A: Q.43, K.44, G.45 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.45 DMS.11: 5 residues within 4Å: Chain B: K.145, F.148, D.149, F.150, L.151 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.145 DMS.12: 5 residues within 4Å: Chain B: L.4, R.5, K.116, G.117, F.118 No protein-ligand interaction detected (PLIP) DMS.13: 4 residues within 4Å: Chain B: Y.344, A.366, W.474, A.477 1 PLIP interactions: 1 interactions with chain B Water bridges: B:W.474 DMS.14: 5 residues within 4Å: Chain B: P.34, R.35, G.36, L.37, D.40 No protein-ligand interaction detected (PLIP) DMS.15: 3 residues within 4Å: Chain B: Q.43, K.44, G.45 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.45

2 x B7H: 5-(7-fluoranyl-3,3-dimethyl-2-oxidanylidene-1H-indol-5-yl)-4-methyl-1H-pyrazole-3-carbonitrile(Non-covalent)

B7H.8: 14 residues within 4Å: Chain A: F.268, Y.384, F.388, L.398, L.409, L.418, M.420, K.496, D.497, F.498, V.499, L.500, H.525, W.526 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.409, A:L.418, A:H.525 Hydrogen bonds: A:F.268, A:D.497, A:F.498, A:V.499 Water bridges: A:Y.467, A:Y.467 pi-Stacking: A:H.525 B7H.16: 14 residues within 4Å: Chain B: F.268, Y.384, F.388, L.398, L.409, L.418, M.420, K.496, D.497, F.498, V.499, L.500, H.525, W.526 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:L.409, B:L.418, B:H.525 Hydrogen bonds: B:F.268, B:D.497, B:D.497, B:F.498, B:V.499 Water bridges: B:Y.467, B:Y.467 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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