SMTL ID : 8fvs.1

Bromodomain of CBP liganded with CCS1477int

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x YBE: tert-butyl [(1R,4s)-4-{(5M)-5-(3,5-dimethyl-1,2-oxazol-4-yl)-2-[(2S)-6-oxopiperidin-2-yl]-1H-benzimidazol-1-yl}cyclohexyl]carbamate(Non-covalent)

YBE.1: 15 residues within 4Å: Chain A: L.28, P.29, F.30, Q.32, V.34, L.38, L.39, I.41, N.87, R.92, V.93 Chain B: W.70, V.73, W.77 Ligands: EDO.7 16 PLIP interactions: 12 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:P.29, A:F.30, A:V.34, A:L.38, A:L.39, A:I.41, A:V.93, A:V.93, B:W.70, B:V.73, B:W.77, B:W.77 Hydrogen bonds: A:Q.32, A:N.87, A:R.92, A:R.92 YBE.5: 12 residues within 4Å: Chain B: L.28, P.29, F.30, Q.32, V.34, L.38, L.39, I.41, Y.44, Y.86, N.87, V.93 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:P.29, B:F.30, B:V.34, B:L.38, B:L.39, B:L.39, B:I.41, B:V.93 Hydrogen bonds: B:Q.32, B:N.87

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

EDO.2: 4 residues within 4Å: Chain A: S.55, R.59 Chain B: W.84, Y.94 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.94, A:R.59 Water bridges: B:N.81, B:N.81, B:Y.94, A:S.55 EDO.3: 5 residues within 4Å: Chain A: I.47, V.48, K.49, N.50, N.82 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.47, A:K.49, A:N.50, A:N.50, A:N.82 EDO.4: 3 residues within 4Å: Chain A: N.81, W.84, L.85 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.81 Water bridges: A:Y.94 EDO.7: 3 residues within 4Å: Chain B: W.70, D.74 Ligands: YBE.1 2 PLIP interactions: 2 interactions with chain B Water bridges: B:D.74, B:D.74

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shendy, N.A.M. et al., Group 3 medulloblastoma transcriptional networks collapse under domain specific EP300/CBP inhibition. Nat Commun (2024)

Release Date

2024-01-24

Peptides

Histone acetyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histone acetyltransferase

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