SMTL ID : 3oni.2 (1 other biounit)

Crystal Structure of the second bromodomain of human BRD2 in complex with the inhibitor JQ1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.61 Å

Oligo State

homo-dimer

Ligands

2 x JQ1: (6S)-6-(2-tert-butoxy-2-oxoethyl)-4-(4-chlorophenyl)-2,3,9-trimethyl-6,7-dihydrothieno[3,2-f][1,2,4]triazolo[4,3-a][1,4]diazepin-10-ium(Non-covalent)

JQ1.1: 12 residues within 4Å: Chain A: W.29, P.30, F.31, V.35, L.40, L.42, C.84, N.88, H.92, D.93, V.94, M.97 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.29, A:P.30, A:F.31, A:V.35, A:L.42, A:L.42, A:V.94, A:V.94 Hydrogen bonds: A:N.88, A:N.88 Salt bridges: A:H.92 JQ1.6: 12 residues within 4Å: Chain B: W.29, P.30, F.31, V.35, L.40, L.42, C.84, N.88, H.92, D.93, V.94, M.97 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:W.29, B:P.30, B:F.31, B:V.35, B:L.42, B:L.42, B:V.94, B:V.94 Hydrogen bonds: B:N.88, B:N.88 Salt bridges: B:H.92

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

NI.2: 3 residues within 4Å: Chain A: R.78 Chain B: R.78 Ligands: NI.7 No protein-ligand interaction detected (PLIP) NI.3: 1 residues within 4Å: Chain A: R.65 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:R.65, H2O.5 NI.7: 3 residues within 4Å: Chain A: R.78 Chain B: R.78 Ligands: NI.2 No protein-ligand interaction detected (PLIP) NI.8: 1 residues within 4Å: Chain B: R.65 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:R.65, H2O.12

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

EDO.4: 3 residues within 4Å: Chain A: Y.27, M.97, K.100 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.100 EDO.5: 8 residues within 4Å: Chain A: Q.102, D.103, E.106, F.107 Chain B: Y.85, R.99, Q.102 Ligands: EDO.10 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.102, A:D.103, B:R.99 Water bridges: A:D.103, A:D.103 EDO.9: 3 residues within 4Å: Chain B: Y.27, M.97, K.100 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.100 EDO.10: 8 residues within 4Å: Chain A: Y.85, R.99, Q.102 Chain B: Q.102, D.103, E.106, F.107 Ligands: EDO.5 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:R.99, B:Q.102, B:D.103 Water bridges: B:D.103, B:D.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Filippakopoulos, P. et al., Selective inhibition of BET bromodomains. Nature (2010)

Release Date

2010-10-06

Peptides

Bromodomain containing 2, isoform CRA_a: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Bromodomain containing 2, isoform CRA_a

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