SMTL ID : 5ibn.1

Ultra high resolution crystal structure of the apo- form of second bromodomain of BRD2.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 0.94 Å

Oligo State

monomer

Ligands

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

CL.1: 1 residues within 4Å: Chain A: R.75 Ligand excluded by PLIP

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: W.26, P.27, V.91, M.94 No protein-ligand interaction detected (PLIP) GOL.3: 4 residues within 4Å: Chain A: P.31, S.53, T.54, R.57 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.53, A:S.53, A:R.57 GOL.4: 3 residues within 4Å: Chain A: L.39, Y.84, N.85 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.85 GOL.5: 4 residues within 4Å: Chain A: Y.24, A.93, M.94, K.97 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.97 GOL.6: 4 residues within 4Å: Chain A: H.43, I.46, K.47, P.49 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.43, A:I.46

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.7: 2 residues within 4Å: Chain A: P.87, R.96 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.96, A:R.96 PGE.8: 6 residues within 4Å: Chain A: P.3, L.6, K.7, N.10, M.59, E.60 5 PLIP interactions: 5 interactions with chain A Water bridges: A:K.7, A:N.10, A:N.10, A:N.10, A:N.10

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