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SMTL ID : 8piq.1

Crystal Structure of BRD4-BD1 with BI894999

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.12 Å

Oligo State

monomer

Ligands

1 x ZHO: ~{N},3-dimethyl-6-[6-(4-methylpiperazin-1-yl)-1-(phenylmethyl)benzimidazol-2-yl]-[1,2,4]triazolo[4,3-a]pyrazin-8-amine(Non-covalent)

ZHO.1:

15 residues within 4Å:

Chain A: W.40, P.41, F.42, Q.44, V.46, K.50, L.51, L.53, Y.56, C.95, Y.98, N.99, D.104, I.105, M.108

11 PLIP interactions:

11 interactions with chain A

Hydrophobic interactions: A:W.40, A:W.40, A:P.41, A:F.42, A:V.46, A:L.51
Hydrogen bonds: A:N.99, A:N.99
Water bridges: A:Y.56, A:Y.56
pi-Stacking: A:Y.56

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

EDO.2:	6 residues within 4Å: Chain A: I.59, I.60, K.61, T.62, N.94, I.97 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.59, A:K.61, A:T.62, A:N.94
EDO.4:	8 residues within 4Å: Chain A: S.10, N.11, P.12, K.14, K.16, N.75, N.76, Y.77 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.10, A:N.11, A:N.11, A:N.11, A:K.16

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

DMS.3:

4 residues within 4Å:

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

1 PLIP interactions:

1 interactions with chain A

Hydrogen bonds: A:W.40

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Kessler, D., Crystal Structure of BRD4-BD1 with BI894999. To Be Published

Release Date

2023-07-26

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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