SMTL ID : 7usi.6 (5 other biounits)

BRD2-BD1 in complex with MDP5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x O6O: (8M)-8-(2,3-dihydro-1,4-benzodioxin-6-yl)-2-(morpholin-4-yl)-4H-1-benzopyran-4-one(Non-covalent)

O6O.1: 10 residues within 4Å: Chain A: W.28, P.29, F.30, V.34, L.39, Y.44, Y.86, N.87, I.93 Ligands: CL.7 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.29, A:F.30, A:V.34, A:L.39, A:Y.86, A:I.93, A:I.93 Hydrogen bonds: A:Y.44, A:N.87

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 5 residues within 4Å: Chain A: Y.12, V.16, I.103, Q.106, K.107 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.106, A:K.107

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 2 residues within 4Å: Chain A: R.59, N.63 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.63

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

EDO.4: 2 residues within 4Å: Chain A: H.14, L.61 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.15, A:K.15 EDO.5: 2 residues within 4Å: Chain A: Y.66, W.67 No protein-ligand interaction detected (PLIP) EDO.6: 4 residues within 4Å: Chain A: R.59, R.60, N.63, Y.65 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.59, A:R.60, A:N.63

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 1 residues within 4Å: Ligands: O6O.1 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sethi, B. et al., Targeting BRD4 and PI3K signaling pathways for the treatment of medulloblastoma. J Control Release (2023)

Release Date

2023-01-18

Peptides

Bromodomain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

Bromodomain-containing protein 2

Related Entries With Identical Sequence