SMTL ID : 6veo.1

ATAD2B bromodomain in complex with 4-({[(3R,4R)-4-{[3-methyl-5-(5-methylpyridin-3-yl)-2-oxo-1,2-dihydro-1,7-naphthyridin-8-yl]amino}piperidin-3-yl]oxy}methyl)-1lambda~6~-thiane-1,1-dione (compound 38)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: K.72, K.76, E.127, K.130 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:K.72, A:K.76, A:K.130 SO4.2: 4 residues within 4Å: Chain A: R.12, R.15, R.19, H.66 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.15, A:R.19, A:H.66

1 x YD4: 4-({[(3R,4R)-4-{[3-methyl-5-(5-methylpyridin-3-yl)-2-oxo-1,2-dihydro-1,7-naphthyridin-8-yl]amino}piperidin-3-yl]oxy}methyl)-1lambda~6~-thiane-1,1-dione(Non-covalent)

YD4.3: 13 residues within 4Å: Chain A: I.33, V.38, D.39, E.42, V.43, Y.46, Y.88, N.89, D.93, G.95, D.96, I.99, R.102 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.33, A:V.38, A:E.42, A:E.42, A:V.43 Hydrogen bonds: A:D.39, A:N.89, A:N.89, A:N.89, A:D.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lloyd, J.T. et al., Structural Insights into the Recognition of Mono- and Diacetylated Histones by the ATAD2B Bromodomain. J.Med.Chem. (2020)

Release Date

2020-10-28

Peptides

ATPase family AAA domain-containing protein 2B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ATPase family AAA domain-containing protein 2B