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SMTL ID : 5d3t.1

First bromodomain of BRD4 bound to inhibitor XD47

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

monomer

Ligands

1 x 56Y: 4-acetyl-N-(3-carbamoylbenzyl)-3-ethyl-N,5-dimethyl-1H-pyrrole-2-carboxamide(Non-covalent)

56Y.1:

12 residues within 4Å:

Chain A: W.40, P.41, F.42, Q.44, V.46, K.50, L.51, L.53, Y.56, Y.98, N.99, I.105

11 PLIP interactions:

11 interactions with chain A

Hydrophobic interactions: A:F.42, A:V.46, A:L.51, A:L.51, A:L.53, A:Y.56, A:Y.98, A:I.105
Hydrogen bonds: A:P.41, A:N.99
Water bridges: A:P.45

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

NA.2:

3 residues within 4Å:

Chain A: Y.96, I.97, N.99

2 PLIP interactions:

2 interactions with chain A

Water bridges: A:N.99, A:K.100

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

EDO.3:

2 residues within 4Å:

Chain A: R.17, Q.18

3 PLIP interactions:

3 interactions with chain A

Hydrogen bonds: A:R.17
Water bridges: A:Q.18, A:Q.18

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Hugle, M. et al., 4-Acyl Pyrrole Derivatives Yield Novel Vectors for Designing Inhibitors of the Acetyl-Lysine Recognition Site of BRD4(1). J.Med.Chem. (2016)

Release Date

2016-01-20

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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