SMTL ID : 5ij7.1 (1 other biounit)

Structure of Hs/AcPRC2 in complex with a pyridone inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x 6BN: 5,8-dichloro-2-[(4-ethyl-6-methyl-2-oxo-1,2-dihydropyridin-3-yl)methyl]-7-({1-[(2R)-2-hydroxypropanoyl]piperidin-4-yl}oxy)-3,4-dihydroisoquinolin-1(2H)-one(Non-covalent)

6BN.1: 19 residues within 4Å: Chain A: I.109, M.110, Y.111, G.520, W.521, V.554, Y.555, Y.558, C.560, F.562, T.575, R.576, R.582, F.583, A.584, N.585 Chain B: H.134, R.157, D.158 20 PLIP interactions: 19 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.109, A:Y.111, A:Y.111, A:Y.111, A:Y.555, A:Y.558, A:F.562, A:F.562, A:F.562, A:F.562, A:T.575, A:F.583 Hydrogen bonds: A:Y.111, A:W.521, A:W.521, A:R.582, B:R.157 Water bridges: A:N.585, A:N.585 Halogen bonds: A:T.575

7 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain A: C.427, C.440, C.446, C.450 Ligands: ZN.3, ZN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.427, A:C.440, A:C.446, A:C.450 ZN.3: 6 residues within 4Å: Chain A: C.420, C.433, C.440, C.444 Ligands: ZN.2, ZN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.420, A:C.433, A:C.440, A:C.444 ZN.4: 6 residues within 4Å: Chain A: C.420, H.422, C.427, C.431 Ligands: ZN.2, ZN.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.420, A:H.422, A:C.427, A:C.431 ZN.5: 6 residues within 4Å: Chain A: C.457, C.470, C.477, C.482 Ligands: ZN.6, ZN.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.457, A:C.470, A:C.477, A:C.482 ZN.6: 7 residues within 4Å: Chain A: C.457, C.463, C.477, C.485, C.498 Ligands: ZN.5, ZN.7 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.463, A:C.477, A:C.485, A:C.498 ZN.7: 6 residues within 4Å: Chain A: C.457, C.459, C.463, C.468 Ligands: ZN.5, ZN.6 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.457, A:C.459, A:C.463, A:C.468 ZN.8: 4 residues within 4Å: Chain A: C.274, C.277, C.282, H.285 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.274, A:C.277, A:C.282, A:H.285

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brooun, A. et al., Polycomb repressive complex 2 structure with inhibitor reveals a mechanism of activation and drug resistance. Nat Commun (2016)

Release Date

2016-05-04

Peptides

Enhancer of Zeste Homolog 2 (EZH2),Histone-lysine N-methyltransferase EZH2: A
Polycomb protein EED: B
Polycomb protein SUZ12: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
E

C
S

Enhancer of Zeste Homolog 2 (EZH2),Histone-lysine N-methyltransferase EZH2

Polycomb protein EED

Polycomb protein SUZ12

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