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SMTL ID : 5d26.1

First bromodomain of BRD4 bound to inhibitor XD28

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

monomer

Ligands

1 x L28: N~2~-[5-(diethylsulfamoyl)-2-hydroxyphenyl]-3-ethyl-5-methyl-1H-pyrrole-2,4-dicarboxamide(Non-covalent)

L28.1:

10 residues within 4Å:

Chain A: W.40, P.41, F.42, Q.44, V.46, K.50, L.51, 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:I.105
Hydrogen bonds: A:P.41, A:N.99, A:N.99
Water bridges: A:Q.44, A:D.47
pi-Stacking: A:W.40

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

EDO.2:

2 residues within 4Å:

Chain A: N.52, P.54

1 PLIP interactions:

1 interactions with chain A

Hydrogen bonds: A:N.52

1 x BU3: (R,R)-2,3-BUTANEDIOL(Non-covalent)

BU3.3:

5 residues within 4Å:

Chain A: Q.18, Q.23, L.26, L.73, N.76

4 PLIP interactions:

4 interactions with chain A

Hydrogen bonds: A:Q.18, A:Q.23
Water bridges: A:Q.23, A:Q.23

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

NA.4:

0 residues within 4Å:

(No contacts)

No protein-ligand interaction detected (PLIP)

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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