SMTL ID : 6daj.1

Human CYP3A4 bound to an inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

monomer

Ligands

1 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: FZV.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:A.350, A:F.415, A:F.415, A:I.423, A:F.427, A:A.428 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

1 x FZV: tert-butyl [(2S)-1-{[(2R)-1-oxo-3-phenyl-1-{[2-(pyridin-3-yl)ethyl]amino}propan-2-yl]sulfanyl}-3-phenylpropan-2-yl]carbamate(Non-covalent)

FZV.2: 8 residues within 4Å: Chain A: F.88, S.99, F.221, I.281, F.284, A.285, T.289 Ligands: HEM.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.221, A:F.284, A:A.285, A:T.289 Hydrogen bonds: A:S.99 pi-Stacking: A:F.284

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 10 residues within 4Å: Chain A: K.35, G.36, F.37, C.38, M.39, M.351, L.457, S.458, G.460, L.463 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.35, A:C.38, A:M.39

1 x GLN: GLUTAMINE(Non-covalent)

GLN.4: 2 residues within 4Å: Chain A: E.104, K.107 2 PLIP interactions: 2 Ligand-Ligand interactions Hydrogen bonds: Q.4, Q.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Samuels, E.R. et al., Structure-Activity Relationships of Rationally Designed Ritonavir Analogues: Impact of Side-Group Stereochemistry, Headgroup Spacing, and Backbone Composition on the Interaction with CYP3A4. Biochemistry (2019)

Release Date

2019-04-03

Peptides

Cytochrome P450 3A4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome P450 3A4

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