SMTL ID : 8v9f.1

BRD4 BD1 liganded with macrocyclic compound 2d (JJ-II-363A)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.22 Å

Oligo State

monomer

Ligands

1 x YPB: (4bS)-1-ethyl-7,20-dimethyl-4b,10,11,21-tetrahydro-2H,17H-dibenzo[12',13':5',6'][1,4,8]trioxacyclotridecino[11',10':4,5]pyrido[2,3-d]pyrimidine-2,4,19(1H,3H)-trione(Non-covalent)

YPB.1: 16 residues within 4Å: Chain A: W.40, P.41, F.42, Q.44, V.46, K.50, L.51, N.52, L.53, Y.56, C.95, Y.98, N.99, D.104, I.105, M.108 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.40, A:W.40, A:F.42, A:L.51, A:L.51, A:D.104, A:I.105 Hydrogen bonds: A:N.99, A:N.99 Water bridges: A:P.41

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

EDO.2: 7 residues within 4Å: Chain A: I.59, I.60, K.61, T.62, T.90, 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

Schonbrunn, E. et al., Macrocyclic dihydropyridine inhibitors of BET bromodomains. To be published

Release Date

2024-12-18

Peptides

Bromodomain-containing protein 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 4

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