SMTL ID : 6ma7.1 (1 other biounit)

Human CYP3A4 bound to an inhibitor fluconazole

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 27 residues within 4Å: Chain A: R.85, I.98, S.99, W.106, R.110, F.117, F.282, A.285, G.286, T.289, V.293, I.349, A.350, L.353, R.355, P.414, F.415, G.416, S.417, R.420, N.421, C.422, I.423, G.424, A.428, M.432 Ligands: TPF.2 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:I.98, A:F.117, A:F.282, A:V.293, A:I.349, A:A.350, A:L.353, A:F.415, A:F.415, A:I.423 Hydrogen bonds: A:S.417 Water bridges: A:R.85, A:R.355 Salt bridges: A:R.85, A:R.85, A:R.110, A:R.355, A:R.420 Metal complexes: A:C.422 HEM.5: 27 residues within 4Å: Chain B: R.85, I.98, S.99, W.106, R.110, F.117, F.282, A.285, G.286, T.289, V.293, I.349, A.350, L.353, R.355, P.414, F.415, G.416, S.417, R.420, N.421, C.422, I.423, G.424, A.428, M.432 Ligands: TPF.6 19 PLIP interactions: 19 interactions with chain B, Hydrophobic interactions: B:I.98, B:F.117, B:F.282, B:V.293, B:I.349, B:A.350, B:L.353, B:F.415, B:F.415, B:I.423 Hydrogen bonds: B:S.417 Water bridges: B:R.85, B:R.355 Salt bridges: B:R.85, B:R.85, B:R.110, B:R.355, B:R.420 Metal complexes: B:C.422

2 x TPF: 2-(2,4-DIFLUOROPHENYL)-1,3-DI(1H-1,2,4-TRIAZOL-1-YL)PROPAN-2-OL(Non-covalent)

TPF.2: 9 residues within 4Å: Chain A: R.85, S.99, R.192, A.285, T.289, I.349, A.350 Ligands: HEM.1, DMS.3 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.350 Halogen bonds: A:R.192 TPF.6: 9 residues within 4Å: Chain B: R.85, S.99, R.192, A.285, T.289, I.349, A.350 Ligands: HEM.5, DMS.7 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:A.350 Halogen bonds: B:R.192

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

DMS.3: 5 residues within 4Å: Chain A: S.99, I.100, I.281, F.284 Ligands: TPF.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.99 pi-Cation interactions: A:F.88 DMS.7: 5 residues within 4Å: Chain B: S.99, I.100, I.281, F.284 Ligands: TPF.6 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.99 pi-Cation interactions: B:F.88

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 7 residues within 4Å: Chain A: G.157, A.158, M.161, S.175, V.184, K.188, Y.287 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.175, A:K.188, A:Y.287, A:Y.287 EDO.8: 7 residues within 4Å: Chain B: G.157, A.158, M.161, S.175, V.184, K.188, Y.287 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.175, B:K.188, B:Y.287

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sevrioukova, I., Interaction of Human Drug-Metabolizing CYP3A4 with Small Inhibitory Molecules. Biochemistry (2019)

Release Date

2019-01-16

Peptides

Cytochrome P450 3A4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cytochrome P450 3A4

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