SMTL ID : 9nni.1

Crystal structure of CYP46A1 with cyclopropyl[(4M)-4-(1,3-oxazol-5-yl)-6-(trifluoromethyl)-1H-indol-1-yl]methanone (compound 2b)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

HEM.1: 26 residues within 4Å: Chain A: K.84, Y.89, L.105, V.106, W.114, R.118, F.125, F.279, A.282, G.283, T.286, S.287, H.290, A.347, T.350, P.409, F.410, S.411, R.415, S.416, C.417, I.418, G.419, F.422, A.423 Ligands: 01.2 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:L.105, A:V.106, A:F.125, A:F.279, A:F.279, A:A.282, A:H.290, A:A.347, A:F.410, A:I.418, A:F.422, A:A.423 Hydrogen bonds: A:Y.89, A:T.350 Water bridges: A:K.84, A:K.84, A:R.352, A:S.411 Salt bridges: A:K.84, A:K.84, A:R.118, A:R.415 Metal complexes: A:C.417

1 x 01: cyclopropyl[(4M)-4-(1,3-oxazol-5-yl)-6-(trifluoromethyl)-1H-indol-1-yl]methanone

01.2: 17 residues within 4Å: Chain A: F.60, M.88, Y.89, L.92, F.101, L.199, I.202, R.206, I.281, A.282, E.285, T.286, F.351, A.454, T.455 Ligands: HEM.1, EDO.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.60, A:Y.89, A:F.351, A:T.455 Hydrogen bonds: A:R.206, A:R.206, A:T.286

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

EDO.3: 7 residues within 4Å: Chain A: P.346, A.347, W.348, G.349, A.454, T.455 Ligands: 01.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.348, A:G.349, A:G.349, A:A.454

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ito, Y. et al., Structure-based design of a novel series of cholesterol 24-hydroxylase (CH24H) inhibitors bearing 1,3-oxazole as a heme-iron binding group. Bioorg.Med.Chem. (2025)

Release Date

2025-07-02

Peptides

Cholesterol 24-hydroxylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cholesterol 24-hydroxylase

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