SMTL ID : 7l9k.1 (1 other biounit)

Crystal structure of the second bromodomain (BD2) of human BRD2 bound to LRRK2-IN-1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x BU1: 1,4-BUTANEDIOL(Non-functional Binders)

BU1.1: 5 residues within 4Å: Chain A: Y.85, R.99, Q.102, D.103, E.106 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Q.102 Hydrogen bonds: A:Y.85

2 x 4K4: 2-[(2-methoxy-4-{[4-(4-methylpiperazin-1-yl)piperidin-1-yl]carbonyl}phenyl)amino]-5,11-dimethyl-5,11-dihydro-6H-pyrimido[4,5-b][1,4]benzodiazepin-6-one(Non-covalent)

4K4.2: 11 residues within 4Å: Chain A: W.29, P.30, F.31, V.35, L.40, L.42, C.84, Y.87, N.88, V.94 Ligands: 4K4.3 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.29, A:L.40, A:L.42, A:Y.87, A:Y.87 Hydrogen bonds: A:N.88 Water bridges: A:P.30, A:D.36 pi-Stacking: A:W.29 4K4.3: 6 residues within 4Å: Chain A: A.26, W.29, A.39, L.40, M.97 Ligands: 4K4.2 1 PLIP interactions: 1 interactions with chain A pi-Stacking: A:W.29

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

2021-07-07

Peptides

Bromodomain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 2

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