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SMTL ID : 6ciy.1

Crystal Structure of the first bromodomain of human BRD4 in complex with the inhibitor JWG069

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.68 Å

Oligo State

monomer

Ligands

1 x F3J: 11-cyclobutyl-2-({2-methoxy-4-[4-(4-methylpiperazin-1-yl)piperidine-1-carbonyl]phenyl}amino)-5-methyl-5,11-dihydro-6H-pyrimido[4,5-b][1,4]benzodiazepin-6-one(Non-covalent)

F3J.1:

10 residues within 4Å:

Chain A: W.40, P.41, F.42, Q.44, V.46, L.51, L.53, Y.98, N.99, I.105

11 PLIP interactions:

11 interactions with chain A

Hydrophobic interactions: A:W.40, A:W.40, A:L.51, A:L.53, A:Y.98, A:Y.98, A:I.105
Hydrogen bonds: A:N.99
Water bridges: A:Q.44, A:Q.44
pi-Stacking: A:W.40

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

EDO.2:	5 residues within 4Å: Chain A: I.59, I.60, K.61, T.62, N.94 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.59, A:K.61, A:T.62, A:T.62
EDO.3:	2 residues within 4Å: Chain A: D.103, D.104 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.103, A:D.104, A:D.104 Water bridges: A:I.105

1 x NO3: NITRATE ION(Non-functional Binders)

NO3.4:

4 residues within 4Å:

Chain A: Q.37, F.38, W.40, M.108

2 PLIP interactions:

2 interactions with chain A

Hydrogen bonds: A:Q.37, A:W.40

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Wang, J. et al., Structural and Atropisomeric Factors Governing the Selectivity of Pyrimido-benzodiazipinones as Inhibitors of Kinases and Bromodomains. ACS Chem. Biol. (2018)

Release Date

2018-08-29

Peptides

Bromodomain-containing protein 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Bromodomain-containing protein 4

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