SMTL ID : 7ksa.1

Crystal structure of human CYP3A4 with the caged inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 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, L.344, 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 Ligands: X8P.2 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:I.98, A:F.117, A:F.282, A:A.285, A:V.293, A:L.344, 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.3: 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, L.344, 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 Ligands: X8P.4 21 PLIP interactions: 21 interactions with chain B, Hydrophobic interactions: B:I.98, B:F.117, B:F.282, B:A.285, B:V.293, B:L.344, 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 X8P: (tert-butyl {1-[(1-oxo-3-phenyl-1-{[3-(pyridin-3-yl-kappaN)prop-1-en-1-yl]amino}propan-2-yl)sulfanyl]-3-phenylpropan-2-yl}carbamate)(6,6'-dimethyl-2,2'-bipyridine-kappa~2~N~1~,N~1'~)(1~2~,2~2~:2~6~,3~2~-terpyridine-kappa~3~N~1^{1~},N~2^{1~},N~3^{1~})ruthenium(Non-covalent)

X8P.2: 18 residues within 4Å: Chain A: F.37, R.85, R.86, F.88, S.99, F.200, T.204, F.221, I.281, A.285, T.289, I.349, A.350, M.351, R.352, E.354, G.461 Ligands: HEM.1 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:R.86, A:F.88, A:F.88, A:F.88, A:F.200, A:F.200, A:F.200, A:T.204, A:F.221, A:I.281, A:I.281, A:T.289, A:I.349, A:A.350 Hydrogen bonds: A:R.85 pi-Stacking: A:F.37, A:F.37, A:F.37 X8P.4: 18 residues within 4Å: Chain B: F.37, R.85, R.86, F.88, S.99, F.200, T.204, F.221, I.281, A.285, T.289, I.349, A.350, M.351, R.352, E.354, G.461 Ligands: HEM.3 18 PLIP interactions: 18 interactions with chain B, Hydrophobic interactions: B:R.86, B:F.88, B:F.88, B:F.88, B:F.200, B:F.200, B:F.200, B:T.204, B:F.221, B:I.281, B:I.281, B:T.289, B:I.349, B:A.350 Hydrogen bonds: B:R.85 pi-Stacking: B:F.37, B:F.37, B:F.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Toupin, N. et al., Photosensitive Ru(II) Complexes as Inhibitors of the Major Human Drug Metabolizing Enzyme CYP3A4. J.Am.Chem.Soc. (2021)

Release Date

2021-06-02

Peptides

Cytochrome P450 3A4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cytochrome P450 3A4

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