SMTL ID : 4d78.1

Cytochrome P450 3A4 bound to an inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 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: J9K.2 20 PLIP interactions: 20 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:L.353, A:F.415, A:F.415, A:I.423, A:F.427 Hydrogen bonds: A:S.417, 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 J9K: tert-butyl [(2S)-1-({3-oxo-3-[(pyridin-3-ylmethyl)amino]propyl}sulfanyl)-3-phenylpropan-2-yl]carbamate(Non-covalent)

J9K.2: 12 residues within 4Å: Chain A: R.85, F.88, S.99, I.100, L.191, I.281, F.284, A.285, T.289, I.349, L.462 Ligands: HEM.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:I.100, A:L.191, A:I.281, A:F.284, A:F.284, A:A.285, A:T.289 Hydrogen bonds: A:S.99, A:I.349

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: D.405, N.406, I.407, D.408, P.409 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.406, A:I.407 GOL.4: 8 residues within 4Å: Chain A: K.35, G.36, F.37, C.38, M.39, S.458, L.459, G.460 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.37, A:C.38, A:M.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kaur, P. et al., Structure-Based Inhibitor Design for Evaluation of a Cyp3A4 Pharmacophore Model. J.Med.Chem. (2016)

Release Date

2015-09-23

Peptides

CYTOCHROME P450 3A4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CYTOCHROME P450 3A4

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