SMTL ID : 5wg6.1 (1 other biounit)

Human Polycomb Repressive Complex 2 in complex with GSK126 inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.90 Å

Oligo State

hetero-1-1-mer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: C.412, C.423 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.412, A:C.423 ZN.2: 7 residues within 4Å: Chain A: C.483, C.490, C.503, C.509, C.513 Ligands: ZN.3, ZN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.490, A:C.503, A:C.509, A:C.513 ZN.3: 6 residues within 4Å: Chain A: C.483, C.496, C.503, C.507 Ligands: ZN.2, ZN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.483, A:C.496, A:C.503, A:C.507 ZN.4: 6 residues within 4Å: Chain A: C.483, H.485, C.490, C.494 Ligands: ZN.2, ZN.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.483, A:H.485, A:C.490, A:C.494 ZN.5: 6 residues within 4Å: Chain A: C.520, C.533, C.540, C.545 Ligands: ZN.6, ZN.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.520, A:C.533, A:C.540, A:C.545 ZN.6: 7 residues within 4Å: Chain A: C.520, C.526, C.540, C.548, C.561 Ligands: ZN.5, ZN.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.526, A:C.540, A:C.548, A:C.561 ZN.7: 6 residues within 4Å: Chain A: C.520, C.522, C.526, C.531 Ligands: ZN.5, ZN.6 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.520, A:C.522, A:C.526, A:C.531 ZN.8: 4 residues within 4Å: Chain A: C.281, C.284, C.289, H.292 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.281, A:C.284, A:C.289, A:H.292

1 x A9G: 1-[(2S)-butan-2-yl]-N-[(4,6-dimethyl-2-oxo-1,2-dihydropyridin-3-yl)methyl]-3-methyl-6-[6-(piperazin-1-yl)pyridin-3-yl]-1H-indole-4-carboxamide(Non-covalent)

A9G.9: 13 residues within 4Å: Chain A: I.117, Y.119, W.584, V.617, Y.618, Y.621, C.623, F.625, T.638, R.645, F.646, A.647, N.648 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.617, A:Y.618, A:Y.621, A:Y.621, A:F.625, A:T.638, A:F.646 Hydrogen bonds: A:Y.119, A:W.584, A:W.584, A:R.645, A:N.648

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bratkowski, M. et al., An Evolutionarily Conserved Structural Platform for PRC2 Inhibition by a Class of Ezh2 Inhibitors. Sci Rep (2018)

Release Date

2018-06-27

Peptides

Histone-lysine N-methyltransferase EZH2,Polycomb protein SUZ12 (E.C.2.1.1.43) chimera: A
Polycomb protein EED: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histone-lysine N-methyltransferase EZH2,Polycomb protein SUZ12 (E.C.2.1.1.43) chimera

Polycomb protein EED

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