SMTL ID : 6y7k.1

Structure of the BRD9 bromodomain and compound 27

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

monomer

Ligands

1 x OEZ: ~{N}-cyclobutyl-3-(6-ethanoylpyrrolo[1,2-a]pyrimidin-8-yl)-4-methoxy-benzamide(Non-covalent)

OEZ.1: 10 residues within 4Å: Chain A: G.30, F.31, F.32, F.34, P.35, V.36, I.40, A.41, N.87, Y.93 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.31, A:F.31, A:F.32, A:V.36, A:I.40, A:A.41, A:Y.93 Hydrogen bonds: A:N.87, A:Y.93, A:Y.93 pi-Stacking: A:Y.93, A:Y.93

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

EDO.2: 6 residues within 4Å: Chain A: K.73, F.76, K.77, G.104, F.105, M.108 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.73, A:K.73 EDO.3: 2 residues within 4Å: Chain A: H.102, K.106 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.106

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 5 residues within 4Å: Chain A: I.48, K.49, H.50, L.78, N.82 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.49, A:H.50, A:N.82, A:N.82 NA.5: 3 residues within 4Å: Chain A: H.18, M.107, R.112 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.18, A:R.112, A:R.112

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Diaz-Saez, L. et al., Structure of the BRD9 bromodomain. To Be Published

Release Date

2021-03-31

Peptides

Bromodomain-containing protein 9: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 9

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