SMTL ID : 5u6v.1

X-ray crystal structure of 1,2,3-triazolobenzodiazepine in complex with BRD2(D2)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

monomer

Ligands

1 x 7WY: 5-[7-(4-chlorophenyl)-1-methyl-6,7-dihydro-5H-[1,2,3]triazolo[1,5-d][1,4]benzodiazepin-9-yl]pyridin-2-amine(Non-covalent)

7WY.1: 12 residues within 4Å: Chain A: W.25, P.26, F.27, V.31, L.36, L.38, C.80, N.84, H.88, D.89, V.90, M.93 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.25, A:W.25, A:P.26, A:F.27, A:V.31, A:L.36, A:L.36, A:V.90, A:V.90 Hydrogen bonds: A:N.84 Water bridges: A:C.80 pi-Stacking: A:W.25

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

EDO.2: 4 residues within 4Å: Chain A: Q.98, D.99, E.102, F.103 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.99 EDO.3: 7 residues within 4Å: Chain A: I.44, I.45, K.46, H.47, L.75, N.79, K.82 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.46, A:H.47, A:H.47, A:N.79, A:K.82, A:K.82 EDO.4: 0 residues within 4Å: (No contacts) 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.43, A:D.43 EDO.5: 2 residues within 4Å: Chain A: K.6, N.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.6 EDO.6: 3 residues within 4Å: Chain A: S.2, E.3, Q.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.4 Water bridges: A:S.2, A:S.2, A:E.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sharp, P.P. et al., Design, Synthesis, and Biological Activity of 1,2,3-Triazolobenzodiazepine BET Bromodomain Inhibitors. ACS Med Chem Lett (2017)

Release Date

2017-12-13

Peptides

Bromodomain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 2