SMTL ID : 6s57.1

Crystal structure of human ATAD2 bromodomain in complex withN-(3-(azepan-1-ylsulfonyl)-4-methylphenyl)-2-(4,4-dimethyl-2,5-dioxoimidazolidin-1-yl)acetamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

monomer

Ligands

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

EDO.1: 6 residues within 4Å: Chain A: E.10, F.14, E.114, L.115, D.116, F.119 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.10, A:E.10, A:E.114, A:D.116

1 x KVT: ~{N}-[3-(azepan-1-ylsulfonyl)-4-methyl-phenyl]-2-[4,4-dimethyl-2,5-bis(oxidanylidene)imidazolidin-1-yl]ethanamide(Non-covalent)

KVT.2: 14 residues within 4Å: Chain A: R.29, V.30, F.31, K.33, P.34, V.35, D.36, Y.43, M.51, I.78, A.82, Y.85, N.86, I.96 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.31, A:V.35, A:Y.85, A:I.96 Hydrogen bonds: A:R.29, A:K.33, A:D.36, A:N.86 Water bridges: A:A.82

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain A: R.29, R.99 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.29 Water bridges: A:R.99, A:R.99 Salt bridges: A:R.99 SO4.4: 3 residues within 4Å: Chain A: R.9, R.12, R.16 6 PLIP interactions: 6 interactions with chain A Water bridges: A:R.12, A:R.16, A:R.16 Salt bridges: A:R.9, A:R.12, A:R.16

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bamborough, P. et al., A Qualified Success: Discovery of a New Series of ATAD2 Bromodomain Inhibitors with a Novel Binding Mode Using High-Throughput Screening and Hit Qualification. J.Med.Chem. (2019)

Release Date

2019-08-21

Peptides

ATPase family AAA domain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ATPase family AAA domain-containing protein 2

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