SMTL ID : 6kei.1

Crystal structure of BRD4 bromodomain 1 (BD1) in complex with 16-methoxy-11-methyl-6-[(pyridin-2-yl)methoxy]-2-oxa-11-azatetracyclo[8.6.1.03,8.013,17]heptadeca-1(16),3,5,7,9,13(17),14-heptaen-12-one

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

monomer

Ligands

1 x D6U: 16-methoxy-11-methyl-6-[(pyridin-2-yl)methoxy]-2-oxa-11-azatetracyclo[8.6.1.03,8.013,17]heptadeca-1(16),3,5,7,9,13(17),14-heptaen-12-one(Non-covalent)

D6U.1: 9 residues within 4Å: Chain A: W.40, P.41, F.42, Q.44, V.46, L.51, L.53, N.99, I.105 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.41, A:L.51, A:L.51, A:I.105, A:I.105 Hydrogen bonds: A:N.99 Water bridges: A:Q.44 pi-Stacking: A:W.40

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 2 residues within 4Å: Chain A: P.15, K.16 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.16 FMT.3: 4 residues within 4Å: Chain A: T.19, Q.21, N.80, A.81 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.81 Water bridges: A:Q.21, A:Q.21, A:N.80

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yoo, M. et al., Synthesis and Structure-Activity Relationships of Aristoyagonine Derivatives as Brd4 Bromodomain Inhibitors with X-ray Co-Crystal Research. Molecules (2021)

Release Date

2020-07-08

Peptides

Bromodomain-containing protein 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 4

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