SMTL ID : 7oep.1

C-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH 5-(1-(1,3-dimethoxypropan-2-yl)-5-morpholino-1H-benzo[d]imidazol-2-yl)-1,3-dimethylpyridin-2(1H)-one

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

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

EDO.1: 4 residues within 4Å: Chain A: Q.103, D.104, E.107, F.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.104 EDO.2: 3 residues within 4Å: Chain A: K.62, D.67, E.73 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.62, A:K.62, A:E.73 EDO.3: 5 residues within 4Å: Chain A: Y.86, K.87, Y.88, N.89, P.90 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.87

1 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.4: 7 residues within 4Å: Chain A: S.7, L.10, K.11, N.14, M.63, E.64, R.66 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.66 Hydrogen bonds: A:K.11, A:N.14

1 x NV2: 5-[1-(1,3-dimethoxypropan-2-yl)-5-morpholin-4-yl-benzimidazol-2-yl]-1,3-dimethyl-pyridin-2-one(Non-covalent)

NV2.5: 10 residues within 4Å: Chain A: W.30, P.31, F.32, V.36, L.41, L.43, Y.88, N.89, V.95, M.98 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.31, A:F.32, A:V.36, A:L.41, A:V.95 Hydrogen bonds: A:N.89 Water bridges: A:D.37 pi-Stacking: A:W.30

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rianjongdee, F. et al., Discovery of a Highly Selective BET BD2 Inhibitor from a DNA-Encoded Library Technology Screening Hit. J.Med.Chem. (2021)

Release Date

2021-07-21

Peptides

Bromodomain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Bromodomain-containing protein 2

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