SMTL ID : 5am3.1

ligand complex structure of soluble epoxide hydrolase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: K.145, M.146, F.148, D.149, F.150, L.151 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.145, A:D.149 Water bridges: A:L.151, A:L.151 SO4.6: 6 residues within 4Å: Chain B: K.145, M.146, F.148, D.149, F.150, L.151 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.145, B:D.149 Water bridges: B:L.151, B:L.151

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: P.260, A.285, G.286, Y.287, D.544, R.548 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.286, A:Y.287, A:D.544 GOL.7: 6 residues within 4Å: Chain B: P.260, A.285, G.286, Y.287, D.544, R.548 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.286, B:D.544

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

PEG.3: 7 residues within 4Å: Chain A: P.230, A.281, Q.284, A.285, N.536, I.540 Ligands: PEG.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.281, A:N.536 Water bridges: A:Q.537 PEG.4: 9 residues within 4Å: Chain A: E.143, P.230, T.231, Y.277, P.280, A.281, Q.284, N.536 Ligands: PEG.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.231, A:T.231, A:Y.277, A:A.281 PEG.8: 7 residues within 4Å: Chain B: P.230, A.281, Q.284, A.285, N.536, I.540 Ligands: PEG.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.281, B:N.536 Water bridges: B:Q.537 PEG.9: 9 residues within 4Å: Chain B: E.143, P.230, T.231, Y.277, P.280, A.281, Q.284, N.536 Ligands: PEG.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.231, B:Y.277, B:A.281

2 x AUB: 4-[(trans-4-{[(3s,5s,7s)-tricyclo[3.3.1.1~3,7~]dec-1-ylcarbamoyl]amino}cyclohexyl)oxy]benzoic acid(Non-covalent)

AUB.5: 13 residues within 4Å: Chain A: F.268, D.336, W.337, T.361, Y.384, Q.385, L.409, S.416, M.420, Y.467, L.500, H.525, W.526 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.268, A:W.337, A:W.337, A:T.361, A:L.409, A:Y.467, A:L.500, A:H.525, A:W.526 Hydrogen bonds: A:D.336, A:D.336, A:Q.385 AUB.10: 13 residues within 4Å: Chain B: F.268, D.336, W.337, T.361, Y.384, Q.385, L.409, S.416, M.420, Y.467, L.500, H.525, W.526 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:F.268, B:W.337, B:W.337, B:T.361, B:L.409, B:Y.467, B:L.500, B:H.525, B:W.526 Hydrogen bonds: B:D.336, B:D.336, B:Y.384, B:Q.385, B:Y.467

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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