SMTL ID : 5ig6.1

Ultra-high resolution crystal structure of second bromodomain of BRD2 in complex with inhibitor 6B3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 0.91 Å

Oligo State

monomer

Ligands

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

CL.1: 1 residues within 4Å: Chain A: R.79 Ligand excluded by PLIP CL.2: 4 residues within 4Å: Chain A: Y.46, P.53, M.54, N.84 Ligand excluded by PLIP

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: Y.86, R.100, Q.103, D.104, E.107 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.86, A:R.100 GOL.4: 3 residues within 4Å: Chain A: K.62, D.67, E.73 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.62, A:K.62

1 x 6B3: 2'-[(6-oxo-5,6-dihydrophenanthridin-3-yl)carbamoyl][1,1'-biphenyl]-2-carboxylic acid(Non-covalent)

6B3.5: 6 residues within 4Å: Chain A: P.31, V.36, L.41, L.43, N.89, H.93 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.31, A:V.36, A:L.41, A:L.43, A:L.43 Hydrogen bonds: A:N.89, A:N.89 Salt bridges: A:H.93

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tripathi, S. et al., A Novel Phenanthridionone Based Scaffold As a Potential Inhibitor of the BRD2 Bromodomain: Crystal Structure of the Complex. Plos One (2016)

Release Date

2016-06-22

Peptides

Bromodomain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 2