SMTL ID : 9bv5.1

Crystal structure of human CYP3A4 in complex with SJ000362065

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.71 Å

Oligo State

monomer

Ligands

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

HEM.1: 28 residues within 4Å: Chain A: R.84, I.97, S.98, W.105, R.109, F.116, F.281, A.284, G.285, V.292, I.348, A.349, L.352, R.354, P.413, F.414, G.415, S.416, R.419, N.420, C.421, I.422, G.423, A.427, M.431 Ligands: 01.2, EDO.3, EDO.4 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:I.97, A:F.116, A:F.281, A:V.292, A:I.348, A:A.349, A:F.414, A:F.414, A:I.422, A:A.427 Hydrogen bonds: A:S.416, A:S.416, A:N.420 Salt bridges: A:R.84, A:R.84, A:R.109, A:R.354, A:R.419 Metal complexes: A:C.421

1 x 01: N-[(2P)-2-(1H-imidazol-1-yl)-5-(trifluoromethyl)phenyl]-2,2-dimethylpropanamide

01.2: 14 residues within 4Å: Chain A: F.87, S.98, I.99, R.191, F.192, F.220, I.280, F.283, A.284, T.288, I.348, A.349 Ligands: HEM.1, EDO.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:R.191, A:I.280, A:T.288, A:I.348 pi-Stacking: A:F.283

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

EDO.3: 3 residues within 4Å: Chain A: A.349 Ligands: HEM.1, 01.2 No protein-ligand interaction detected (PLIP) EDO.4: 8 residues within 4Å: Chain A: I.163, T.166, S.167, F.250, F.281, I.282, F.426 Ligands: HEM.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.166

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, J. et al., Decoding the selective chemical modulation of CYP3A4. Nat Commun (2025)

Release Date

2025-04-16

Peptides

Cytochrome P450 3A4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome P450 3A4

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