SMTL ID : 5ai0.1

Ligand complex structure of soluble epoxide hydrolase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.1: 4 residues within 4Å: Chain A: C.142, K.145, M.146 Chain B: D.323 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:C.142, A:M.146 PEG.2: 3 residues within 4Å: Chain A: E.399, S.458, G.459 1 PLIP interactions: 1 interactions with chain A Water bridges: A:F.455 PEG.8: 4 residues within 4Å: Chain A: D.323 Chain B: C.142, K.145, M.146 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:C.142, B:M.146 PEG.9: 3 residues within 4Å: Chain B: E.399, S.458, G.459 1 PLIP interactions: 1 interactions with chain B Water bridges: B:F.455

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

SO4.3: 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:Y.277 Water bridges: A:Y.277, A:Y.277 SO4.4: 5 residues within 4Å: Chain A: N.86, F.87, S.88, E.91, I.92 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.86, A:S.88 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:Y.277 SO4.11: 5 residues within 4Å: Chain B: N.86, F.87, S.88, E.91, I.92 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.86, B:S.88, B:E.91

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

DMS.5: 4 residues within 4Å: Chain A: K.145, F.148, F.150, L.151 No protein-ligand interaction detected (PLIP) DMS.6: 4 residues within 4Å: Chain A: D.336, W.337, M.340, T.361 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:D.336 pi-Cation interactions: A:W.337, A:W.337 DMS.12: 4 residues within 4Å: Chain B: K.145, F.148, F.150, L.151 No protein-ligand interaction detected (PLIP) DMS.13: 4 residues within 4Å: Chain B: D.336, W.337, M.340, T.361 4 PLIP interactions: 4 interactions with chain B Water bridges: B:Y.467 Salt bridges: B:D.336 pi-Cation interactions: B:W.337, B:W.337

2 x JF6: 4-PHENYL-1,2,5-OXADIAZOL-3-AMINE(Non-covalent)

JF6.7: 10 residues within 4Å: Chain A: M.311, W.337, M.340, Y.344, A.366, P.372, M.470, N.473, W.474, A.477 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:M.311, A:W.337, A:Y.344, A:N.473, A:A.477 Hydrogen bonds: A:M.470 Water bridges: A:Y.344 JF6.14: 10 residues within 4Å: Chain B: M.311, W.337, M.340, Y.344, A.366, P.372, M.470, N.473, W.474, A.477 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:M.311, B:W.337, B:Y.344, B:N.473, B:A.477 Hydrogen bonds: B:M.470

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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