SMTL ID : 6zb2.1

C-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH GSK549

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

monomer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: D.104, E.107, F.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.104 EDO.2: 2 residues within 4Å: Chain A: K.62, D.67 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.62 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 Hydrogen bonds: A:K.87

1 x QD5: ~{N}5-cyclopropyl-1-(1~{H}-indol-4-ylmethyl)-~{N}3-methyl-2-oxidanylidene-pyridine-3,5-dicarboxamide(Non-covalent)

QD5.4: 11 residues within 4Å: Chain A: W.30, P.31, F.32, V.36, L.43, Y.88, N.89, P.90, H.93, V.95, M.98 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.30, A:P.31, A:L.43, A:Y.88, A:V.95 Hydrogen bonds: A:P.31, A:N.89, A:N.89 pi-Stacking: A:H.93

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 3 residues within 4Å: Chain A: S.7, K.11, M.63 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Seal, J.T. et al., The Optimization of a Novel, Weak Bromo and Extra Terminal Domain (BET) Bromodomain Fragment Ligand to a Potent and Selective Second Bromodomain (BD2) Inhibitor. J.Med.Chem. (2020)

Release Date

2020-08-05

Peptides

Bromodomain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

Bromodomain-containing protein 2

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