SMTL ID : 7kvm.1

Human CYP3A4 bound to an inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 28 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, F.427, A.428, M.432 Ligands: X71.2 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:I.98, A:F.117, A:F.282, A:A.285, A:V.293, A:I.349, A:I.349, A:A.350, A:L.353, A:F.415, A:I.423, A:F.427 Hydrogen bonds: A:S.417 Salt bridges: A:R.85, A:R.85, A:R.110, A:R.355, A:R.420 Metal complexes: A:C.422 HEM.3: 28 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, F.427, A.428, M.432 Ligands: X71.4 19 PLIP interactions: 19 interactions with chain B, Hydrophobic interactions: B:I.98, B:F.117, B:F.282, B:A.285, B:V.293, B:I.349, B:I.349, B:A.350, B:L.353, B:F.415, B:I.423, B:F.427 Hydrogen bonds: B:S.417 Salt bridges: B:R.85, B:R.85, B:R.110, B:R.355, B:R.420 Metal complexes: B:C.422

2 x X71: tert-butyl [(2S)-1-{[(2R)-2-benzyl-3-oxo-3-{[3-(pyridin-3-yl)propyl]amino}propyl]sulfanyl}-3-phenylpropan-2-yl]carbamate(Non-covalent)

X71.2: 12 residues within 4Å: Chain A: R.86, F.88, S.99, I.100, F.195, F.221, I.281, F.284, A.285, I.349, E.354 Ligands: HEM.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:R.86, A:F.195, A:F.195, A:F.221, A:F.284, A:A.285, A:I.349 Hydrogen bonds: A:S.99, A:S.99 pi-Stacking: A:F.221, A:F.284 X71.4: 12 residues within 4Å: Chain B: R.86, F.88, S.99, I.100, F.195, F.221, I.281, F.284, A.285, I.349, E.354 Ligands: HEM.3 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:R.86, B:F.195, B:F.195, B:F.221, B:F.284, B:A.285, B:I.349 Hydrogen bonds: B:S.99, B:S.99 pi-Stacking: B:F.221, B:F.284

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Samuels, E.R. et al., Rational Design of CYP3A4 Inhibitors: A One-Atom Linker Elongation in Ritonavir-Like Compounds Leads to a Marked Improvement in the Binding Strength. Int J Mol Sci (2021)

Release Date

2021-01-20

Peptides

Cytochrome P450 3A4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cytochrome P450 3A4

Related Entries With Identical Sequence