SMTL ID : 8wxy.1

Crystal Structure of the first bromodomain of human BRD4 in complex with the inhibitor 23

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.87 Å

Oligo State

homo-trimer

Ligands

3 x XGN: 5-[2-(4-fluoranyl-2,6-dimethyl-phenoxy)-5-(2-oxidanylpropan-2-yl)phenyl]-1-methyl-4-[(2-morpholin-4-yl-2-oxidanylidene-ethyl)amino]pyridin-2-one(Non-covalent)

XGN.1: 14 residues within 4Å: Chain A: W.54, P.55, F.56, Q.58, P.59, V.60, D.61, L.65, L.67, C.109, N.113, D.117, D.118, I.119 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.54, A:L.65, A:L.65, A:I.119, A:I.119 Hydrogen bonds: A:Q.58, A:D.61, A:N.113 XGN.2: 13 residues within 4Å: Chain B: W.54, P.55, F.56, Q.58, P.59, V.60, D.61, L.65, L.67, C.109, N.113, D.118, I.119 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:W.54, B:P.55, B:D.61, B:L.65, B:L.65 Hydrogen bonds: B:Q.58, B:D.61, B:N.113 XGN.3: 12 residues within 4Å: Chain C: W.54, P.55, F.56, Q.58, P.59, V.60, D.61, L.65, L.67, N.113, D.117, I.119 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:W.54, C:W.54, C:L.65, C:L.65, C:I.119 Hydrogen bonds: C:Q.58, C:D.61, C:N.113

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain C: I.73, I.74, K.75, T.76, N.108, I.111 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:K.75, C:T.76, C:T.76, C:T.76, C:N.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, W. et al., Discovery of Novel Phenoxyaryl Pyridones as Bromodomain and Extra-Terminal Domain (BET) Inhibitors with High Selectivity for the Second Bromodomain (BD2) to Potentially Treat Acute Myeloid Leukemia. J.Med.Chem. (2024)

Release Date

2024-01-24

Peptides

Bromodomain-containing protein 4: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
A

Bromodomain-containing protein 4

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