SMTL ID : 4wiv.1

Crystal Structure of the first bromodomain of human BRD4 in complex with a novel inhibitor UMB32 (N-TERT-BUTYL-2-[4-(3,5-DIMETHYL-1,2-OXAZOL-4-YL) PHENYL]IMIDAZO[1,2-A]PYRAZIN-3-AMINE)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.56 Å

Oligo State

monomer

Ligands

1 x 3P2: N-tert-butyl-2-[4-(3,5-dimethyl-1,2-oxazol-4-yl)phenyl]imidazo[1,2-a]pyrazin-3-amine(Non-covalent)

3P2.1: 10 residues within 4Å: Chain A: W.40, P.41, F.42, V.46, L.51, L.53, Y.56, Y.98, N.99, I.105 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:P.41, A:P.41, A:F.42, A:V.46, A:L.51, A:L.53, A:Y.98, A:I.105, A:I.105 Hydrogen bonds: A:N.99 Water bridges: A:C.95 pi-Stacking: A:W.40, A:W.40

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

EDO.2: 7 residues within 4Å: Chain A: S.10, N.11, P.12, K.14, K.16, N.76, Y.77 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.11 Water bridges: A:P.12, A:K.16 EDO.3: 6 residues within 4Å: Chain A: Q.44, P.45, D.65, G.67, T.68, K.71 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.43

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 3 residues within 4Å: Chain A: T.9, S.10, N.75 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.9, A:T.9, A:N.75, A:N.75 Water bridges: A:T.9 GOL.5: 6 residues within 4Å: Chain A: I.59, I.60, K.61, T.62, N.94, I.97 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.59, A:K.61, A:T.62, A:T.62, A:N.94

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McKeown, M.R. et al., Biased multicomponent reactions to develop novel bromodomain inhibitors. J.Med.Chem. (2014)

Release Date

2014-10-29

Peptides

Bromodomain-containing protein 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 4

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