SMTL ID : 4o72.1

Crystal structure of the first bromodomain of human BRD4 in complex with NU7441

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x 2R4: 8-(dibenzo[b,d]thiophen-4-yl)-2-(morpholin-4-yl)-4H-chromen-4-one(Non-covalent)

2R4.1: 16 residues within 4Å: Chain A: W.40, P.41, F.42, Q.44, P.45, V.46, D.47, K.50, L.51, L.53, Y.56, C.95, Y.98, N.99, I.105 Ligands: EDO.7 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:W.40, A:W.40, A:P.41, A:F.42, A:Q.44, A:V.46, A:D.47, A:K.50, A:L.51, A:L.51, A:Y.98, A:I.105, A:I.105 Hydrogen bonds: A:N.99

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 5 residues within 4Å: Chain A: Q.21, A.81, Q.82, I.85, L.123 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.21, A:Q.82

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

EDO.3: 7 residues within 4Å: Chain A: I.59, I.60, K.61, T.62, T.90, N.94, I.97 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.59, A:K.61, A:T.62, A:T.62, A:N.94 EDO.4: 2 residues within 4Å: Chain A: P.54, D.55 5 PLIP interactions: 5 interactions with chain A Water bridges: A:D.55, A:D.55, A:D.55, A:Y.98, A:Y.98 EDO.5: 4 residues within 4Å: Chain A: T.32, L.115, Q.118, K.119 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.119 Water bridges: A:E.122 EDO.6: 3 residues within 4Å: Chain A: H.36, Q.37, W.40 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Q.37, A:W.40 EDO.7: 5 residues within 4Å: Chain A: W.40, D.104, I.105, M.108 Ligands: 2R4.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.104 Water bridges: A:I.105

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 3 residues within 4Å: Chain A: M.2, N.3, V.49 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain A: S.1, M.2, Y.57 Ligand excluded by PLIP CL.10: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ember, S.W. et al., Acetyl-lysine Binding Site of Bromodomain-Containing Protein 4 (BRD4) Interacts with Diverse Kinase Inhibitors. Acs Chem.Biol. (2014)

Release Date

2014-03-05

Peptides

Bromodomain-containing protein 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 4

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