SMTL ID : 7ymg.1 (1 other biounit)

Crystal structure of BRD4 bromodomain 1 (BD1) in complex with 2-({3-ethyl-[1,2,4]triazolo[4,3-b]pyridazin-6-yl}amino)-3-(1H-indol-3-yl)propan-1-ol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

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

NA.1: 3 residues within 4Å: Chain A: Y.24, K.119, E.122 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.24, A:E.122

1 x JHO: (2S)-2-[(3-ethyl-[1,2,4]triazolo[4,3-b]pyridazin-6-yl)amino]-3-(1H-indol-3-yl)propan-1-ol(Non-covalent)

JHO.2: 12 residues within 4Å: Chain A: W.40, P.41, F.42, V.46, L.51, L.53, Y.98, N.99, D.104, I.105, M.108 Ligands: FMT.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.40, A:F.42, A:V.46, A:L.53, A:Y.98, A:D.104, A:I.105, A:I.105 Hydrogen bonds: A:N.99

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 2 residues within 4Å: Chain A: W.79, N.80 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.80 FMT.4: 4 residues within 4Å: Chain A: D.103, D.104, I.105 Ligands: JHO.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.105 Water bridges: A:D.104, A:D.104

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 7 residues within 4Å: Chain A: N.3, P.4, P.5, P.6, V.46, D.47, Y.57 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.4, A:D.47, A:Y.57 Water bridges: A:Y.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, J.H. et al., Crystal structure of [1,2,4]triazolo[4,3-b]pyridazine derivatives as BRD4 bromodomain inhibitors and structure-activity relationship study. Sci Rep (2023)

Release Date

2023-01-18

Peptides

Bromodomain-containing protein 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 4

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