SMTL ID : 6tq1.1 (1 other biounit)

N-TERMINAL BROMODOMAIN OF HUMAN BRD4 WITH 5-(1-(1,3-dimethoxypropan-2-yl)-5-morpholino-1H-benzo[d]imidazol-2-yl)-1,3-dimethylpyridin-2(1H)-one

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 2 residues within 4Å: Chain A: W.52, R.55 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.55, A:R.55 Salt bridges: A:R.55 SO4.2: 4 residues within 4Å: Chain A: T.80, R.83, R.84, Y.89 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.84, A:Y.89 Salt bridges: A:R.83, A:R.84

2 x NUH: 5-(3-methoxyphenyl)-1-methyl-pyridin-2-one(Non-covalent)

NUH.3: 9 residues within 4Å: Chain A: W.52, P.53, F.54, Q.56, V.58, K.62, L.63, N.111, I.117 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.52, A:P.53, A:L.63, A:L.63 Hydrogen bonds: A:Q.56, A:N.111 NUH.5: 10 residues within 4Å: Chain B: W.52, P.53, F.54, Q.56, V.58, L.63, C.107, N.111, I.117 Ligands: EDO.6 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:W.52, B:P.53, B:L.63, B:L.63 Hydrogen bonds: B:Q.56, B:N.111

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

EDO.4: 6 residues within 4Å: Chain A: Y.108, Q.122, E.125, K.126 Chain B: N.101, T.105 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:T.105, A:Q.122, A:K.126 Water bridges: B:T.102, A:K.126 EDO.6: 5 residues within 4Å: Chain B: W.52, D.116, I.117, M.120 Ligands: NUH.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:I.117 EDO.7: 1 residues within 4Å: Chain B: Q.49 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.49 Water bridges: B:Q.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wellaway, C.R. et al., Discovery of a Bromodomain and Extraterminal Inhibitor with a Low Predicted Human Dose through Synergistic Use of Encoded Library Technology and Fragment Screening. J.Med.Chem. (2020)

Release Date

2020-01-15

Peptides

Bromodomain-containing protein 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

Bromodomain-containing protein 2

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