SMTL ID : 3ibd.1

Crystal structure of a cytochrome P450 2B6 genetic variant in complex with the inhibitor 4-(4-chlorophenyl)imidazole

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 24 residues within 4Å: Chain A: R.79, V.94, I.95, W.102, R.106, A.279, G.280, T.283, T.284, T.287, Q.338, L.344, V.348, H.350, L.373, P.409, F.410, S.411, R.415, C.417, L.418, G.419, A.423 Ligands: CPZ.2 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:I.95, A:A.279, A:T.283, A:L.344, A:V.348, A:L.373, A:F.410, A:F.410, A:L.418 Hydrogen bonds: A:I.95, A:S.411, A:S.411 Water bridges: A:V.348 Salt bridges: A:R.79, A:R.79, A:R.106, A:H.350, A:R.415 Metal complexes: A:C.417

1 x CPZ: 4-(4-CHLOROPHENYL)IMIDAZOLE(Non-covalent)

CPZ.2: 7 residues within 4Å: Chain A: I.82, F.278, A.279, T.283, L.344, V.348 Ligands: HEM.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.348 Hydrogen bonds: A:T.283, A:T.283 Water bridges: A:T.283 pi-Stacking: A:F.278

2 x CM5: 5-CYCLOHEXYL-1-PENTYL-BETA-D-MALTOSIDE(Non-covalent)

CM5.3: 8 residues within 4Å: Chain A: F.169, E.175, F.176, M.179, L.180, F.183, Y.225, F.277 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.169, A:F.169, A:F.176, A:L.180, A:F.183, A:Y.225, A:Y.225, A:F.277 Hydrogen bonds: A:E.175 CM5.4: 6 residues within 4Å: Chain A: L.24, M.27, D.28, R.29, L.32, L.197 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.32, A:L.197

4 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.5: 3 residues within 4Å: Chain A: S.442, P.443, R.468 No protein-ligand interaction detected (PLIP) SCN.6: 5 residues within 4Å: Chain A: A.302, E.303, S.439, M.440, R.472 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:M.440 SCN.7: 4 residues within 4Å: Chain A: Y.298, P.299, H.300, V.301 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.304 Water bridges: A:R.304 SCN.8: 5 residues within 4Å: Chain A: P.15, Q.26, R.38, F.39, K.42 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.38, A:Y.43

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gay, S.C. et al., Crystal structure of a cytochrome P450 2B6 genetic variant in complex with the inhibitor 4-(4-chlorophenyl)imidazole at 2.0-A resolution. Mol.Pharmacol. (2010)

Release Date

2010-01-19

Peptides

Cytochrome P450 2B6: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome P450 2B6

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