SMTL ID : 7xng.1

Crystal structure of CBP bromodomain liganded with Y08092(31g)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-dimer

Ligands

2 x GI5: 3-[(1-ethanoylindol-3-yl)carbonylamino]-5-[[(2S)-oxan-2-yl]oxymethyl]benzoic acid(Non-covalent)

GI5.1: 9 residues within 4Å: Chain A: L.45, P.46, Q.49, V.51, L.56, I.58, N.104, V.110, F.113 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.51, A:L.56, A:I.58, A:V.110, A:V.110, A:F.113 Hydrogen bonds: A:P.46, A:N.104 Water bridges: A:Q.49 GI5.4: 14 residues within 4Å: Chain A: E.35, Y.38, K.75 Chain B: P.42, L.45, P.46, Q.49, V.51, L.56, N.104, R.109, V.110, F.113 Ligands: PEG.3 12 PLIP interactions: 6 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:E.35, A:Y.38, A:K.75, B:V.51, B:L.56, B:F.113 Hydrogen bonds: A:K.75, B:P.46, B:Q.49, B:N.104 Salt bridges: A:K.75 pi-Cation interactions: A:K.75

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain B: W.101, L.102, Y.103, N.104, K.106, Y.111 Ligands: PEG.3 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.101, B:K.106

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 6 residues within 4Å: Chain B: Y.103, N.104, R.105, S.108 Ligands: GOL.2, GI5.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.104, B:R.105, B:S.108 Water bridges: B:Y.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xiang, Q. et al., Crystal structure of CBP bromodomain liganded with Y08092(31g). To Be Published

Release Date

2022-06-01

Peptides

CREB-binding protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

CREB-binding protein

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