SMTL ID : 7lem.2 (1 other biounit)

Crystal structure of the first bromodomain (BD1) of human BRDT bound to LRRK2-IN-1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

monomer

Ligands

1 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)

4K4.1: 12 residues within 4Å: Chain A: W.26, P.27, F.28, V.32, K.36, L.37, L.39, C.81, Y.84, N.85, I.91 Ligands: EDO.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.39, A:L.39, A:Y.84, A:Y.84 Hydrogen bonds: A:N.85

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

EDO.2: 5 residues within 4Å: Chain A: R.30, P.31, D.51, N.53, T.54 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.54 EDO.3: 1 residues within 4Å: Chain A: D.33 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.33 Water bridges: A:K.36 EDO.4: 3 residues within 4Å: Chain A: L.16, K.17, W.20 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.17 EDO.5: 7 residues within 4Å: Chain A: W.26, P.27, P.31, V.32, D.33, L.37 Ligands: 4K4.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.31, A:D.33 EDO.6: 2 residues within 4Å: Chain A: K.47, N.48 2 PLIP interactions: 2 interactions with chain A Water bridges: A:I.46, A:K.47

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

2021-07-14

Peptides

Bromodomain testis-specific protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Bromodomain testis-specific protein

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