SMTL ID : 7l9g.1

Crystal structure of the second bromodomain (BD2) of human BRD2 bound to BI2536

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.36 Å

Oligo State

monomer

Ligands

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

EDO.1: 7 residues within 4Å: Chain A: W.29, P.30, H.92, D.93, V.94, M.97 Ligands: R78.3 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.93 EDO.2: 2 residues within 4Å: Chain A: L.5, R.65 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.5, A:R.65, A:R.65

1 x R78: 4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide(Non-covalent)

R78.3: 13 residues within 4Å: Chain A: W.29, P.30, F.31, V.35, L.40, L.42, Y.45, C.84, Y.87, N.88, H.92, V.94 Ligands: EDO.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.35, A:L.42, A:Y.45, A:Y.87, A:V.94 Hydrogen bonds: A:N.88 Water bridges: A:P.30

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain A: A.75, R.78 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Karim, R.M. et al., Differential BET Bromodomain Inhibition by Dihydropteridinone and Pyrimidodiazepinone Kinase Inhibitors. J.Med.Chem. (2021)

Release Date

2021-11-17

Peptides

Bromodomain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 2

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