SMTL ID : 9dch.1

Single-stranded RNA-mediated PRC2 dimer

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-2-2-mer

Ligands

14 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain B: C.527, H.529, C.534, C.538 Ligands: ZN.2, ZN.3 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.527, B:H.529, B:C.534, B:C.538 ZN.2: 6 residues within 4Å: Chain B: C.527, C.540, C.547, C.551 Ligands: ZN.1, ZN.3 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.527, B:C.540, B:C.547, B:C.551 ZN.3: 6 residues within 4Å: Chain B: C.534, C.547, C.553, C.557 Ligands: ZN.1, ZN.2 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.534, B:C.547, B:C.553, B:C.557 ZN.4: 5 residues within 4Å: Chain B: C.564, C.566, C.570, C.575 Ligands: ZN.5 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.564, B:C.566, B:C.570, B:C.575 ZN.5: 5 residues within 4Å: Chain B: C.570, C.584, C.592, C.605 Ligands: ZN.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.570, B:C.584, B:C.592, B:C.605 ZN.6: 4 residues within 4Å: Chain B: C.564, C.577, C.584, C.589 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.564, B:C.577, B:C.584, B:C.589 ZN.7: 5 residues within 4Å: Chain B: C.285, C.288, C.293, L.295, H.296 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.285, B:C.288, B:C.293, B:H.296 ZN.8: 6 residues within 4Å: Chain H: C.527, H.529, C.534, C.538 Ligands: ZN.9, ZN.10 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.527, H:H.529, H:C.534, H:C.538 ZN.9: 6 residues within 4Å: Chain H: C.527, C.540, C.547, C.551 Ligands: ZN.8, ZN.10 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.527, H:C.540, H:C.547, H:C.551 ZN.10: 6 residues within 4Å: Chain H: C.534, C.547, C.553, C.557 Ligands: ZN.8, ZN.9 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.534, H:C.547, H:C.553, H:C.557 ZN.11: 6 residues within 4Å: Chain H: C.564, C.566, C.570, C.575 Ligands: ZN.12, ZN.13 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.564, H:C.566, H:C.570, H:C.575 ZN.12: 6 residues within 4Å: Chain H: C.570, C.584, C.592, C.605 Ligands: ZN.11, ZN.13 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.570, H:C.584, H:C.592, H:C.605 ZN.13: 6 residues within 4Å: Chain H: C.564, C.577, C.584, C.589 Ligands: ZN.11, ZN.12 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.564, H:C.577, H:C.584, H:C.589 ZN.14: 4 residues within 4Å: Chain H: C.285, C.288, C.293, H.296 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.285, H:C.288, H:C.293, H:H.296

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Song, J. et al., Diverse RNA Structures Induce PRC2 Dimerization and Inhibit Histone Methyltransferase Activity. Biorxiv (2024)

Release Date

2025-03-12

Peptides

Isoform 2 of Histone-lysine N-methyltransferase EZH2: BH
Polycomb protein SUZ12: CI
RBAP48: DJ
Zinc finger protein AEBP2: EK
Protein Jumonji: FL
Polycomb protein EED: GM

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
A

H
H

C
B

I
I

D
D

J
K

E
F

K
M

F
E

L
L

G
C

M
J

Isoform 2 of Histone-lysine N-methyltransferase EZH2

Polycomb protein SUZ12

RBAP48

Zinc finger protein AEBP2

Protein Jumonji

Polycomb protein EED

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