SMTL ID : 5fg6.1

Crystal structure of the bromodomain of human BRD1 (BRPF2) in complex with OF-1 chemical probe

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

monomer

Ligands

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

EDO.1: 4 residues within 4Å: Chain A: D.97, Q.98, V.101 Ligands: EDO.2 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.97 EDO.2: 2 residues within 4Å: Chain A: V.101 Ligands: EDO.1 No protein-ligand interaction detected (PLIP) EDO.3: 5 residues within 4Å: Chain A: E.68, F.71, D.72, G.100, L.103 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.68, A:D.72 Water bridges: A:R.104 EDO.4: 0 residues within 4Å: (No contacts) 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.85, A:D.85

1 x 5XE: 4-bromanyl-~{N}-(6-methoxy-1,3-dimethyl-2-oxidanylidene-benzimidazol-5-yl)-2-methyl-benzenesulfonamide(Non-covalent)

5XE.5: 11 residues within 4Å: Chain A: I.26, F.27, Q.29, V.31, S.32, E.35, V.36, C.78, Y.81, N.82, F.88 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.31, A:V.31 Hydrogen bonds: A:S.32, A:N.82 Water bridges: A:S.32 pi-Stacking: A:F.88

1 x NI: NICKEL (II) ION(Non-covalent)

NI.6: 2 residues within 4Å: Chain A: K.44, H.45 No protein-ligand interaction detected (PLIP)

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.7: 2 residues within 4Å: Chain A: R.3, L.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.4 Salt bridges: A:R.3

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tallant, C. et al., Crystal structure of the bromodomain of human BRD1 (BRPF2) in complex with OF-1 chemical probe. To Be Published

Release Date

2016-02-03

Peptides

Bromodomain-containing protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bromodomain-containing protein 1