SMTL ID : 5am1.1

ligand complex structure of soluble epoxide hydrolase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: L.409, M.420, V.499, H.525, W.526 Ligands: I5T.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.526 Water bridges: A:V.499 SO4.2: 5 residues within 4Å: Chain A: L.4, R.5, K.116, G.117, F.118 No protein-ligand interaction detected (PLIP) 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:M.442 Water bridges: A:Y.277, A:Y.277 SO4.6: 6 residues within 4Å: Chain B: L.409, M.420, V.499, H.525, W.526 Ligands: I5T.10 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.526 Water bridges: B:D.497 SO4.7: 5 residues within 4Å: Chain B: L.4, R.5, K.116, G.117, F.118 No protein-ligand interaction detected (PLIP) SO4.8: 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

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

DMS.4: 4 residues within 4Å: Chain A: K.145, F.148, F.150, L.151 No protein-ligand interaction detected (PLIP) DMS.9: 4 residues within 4Å: Chain B: K.145, F.148, F.150, L.151 No protein-ligand interaction detected (PLIP)

2 x I5T: 4-oxidanylidene-N-[(1S,2R)-2-phenylcyclopropyl]spiro[3H-chromene-2,4'-piperidine]-1'-carboxamide(Non-covalent)

I5T.5: 15 residues within 4Å: Chain A: F.268, D.336, W.337, M.340, I.364, Y.384, Q.385, F.388, L.409, M.420, Y.467, L.500, M.504, H.525 Ligands: SO4.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.268, A:F.268, A:W.337, A:W.337, A:W.337, A:I.364, A:Y.384, A:Y.384, A:F.388, A:L.409, A:L.500 Hydrogen bonds: A:D.336 I5T.10: 15 residues within 4Å: Chain B: F.268, D.336, W.337, M.340, I.364, Y.384, Q.385, F.388, L.409, M.420, Y.467, L.500, M.504, H.525 Ligands: SO4.6 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:F.268, B:F.268, B:W.337, B:W.337, B:W.337, B:I.364, B:Y.384, B:Y.384, B:F.388, B:L.409, B:L.500 Hydrogen bonds: B:D.336, B:Y.384, 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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