SMTL ID : 6ajv.1

Crystal structure of BRD4 in complex with isoliquiritigenin and DMSO (Cocktail No. 3)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

monomer

Ligands

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

NA.1: 2 residues within 4Å: Chain A: V.57, N.60 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.60, A:N.60 NA.4: 3 residues within 4Å: Chain A: Y.32, K.127, E.130 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.32, A:E.130, A:E.130 NA.5: 5 residues within 4Å: Chain A: R.25, L.30, N.84, Y.85, Y.86 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.25, A:Y.86

1 x HCC: 2',4,4'-TRIHYDROXYCHALCONE(Non-covalent)

HCC.2: 11 residues within 4Å: Chain A: W.48, P.49, Q.52, P.53, V.54, D.55, K.58, L.59, D.112, I.113 Ligands: DMS.3 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:W.48, A:W.48, A:P.49, A:P.49, A:Q.52, A:D.55, A:L.59, A:L.59, A:I.113, A:I.113 Hydrogen bonds: A:D.55, A:K.58, A:I.113 Water bridges: A:D.55

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 8 residues within 4Å: Chain A: P.49, V.54, L.61, Y.64, C.103, N.107, I.113 Ligands: HCC.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yokoyama, T. et al., Structural and thermodynamic characterization of the binding of isoliquiritigenin to the first bromodomain of BRD4. Febs J. (2019)

Release Date

2019-06-12

Peptides

Bromodomain-containing protein 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 4

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