SMTL ID : 9baq.1

CryoEM structure of DIM2-HP1-H3K9me3-DNA complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-2-mer

Ligands

1 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 19 residues within 4Å: Chain A: Y.848, C.849, G.850, G.851, G.852, N.853, F.854, N.870, D.871, I.872, W.873, G.895, S.896, V.897, G.925, N.1220, S.1221, V.1222 Chain G: U.7 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.850, A:G.851, A:G.852, A:N.853, A:F.854, A:I.872, A:S.896, A:V.897, A:G.925, A:N.1220, A:V.1222

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.637, C.639, C.694, H.696 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.637, A:C.639, A:C.694, A:H.696

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shao, Z. et al., Multi-layered heterochromatin interaction as a switch for DIM2-mediated DNA methylation. Nat Commun (2024)

Release Date

2024-07-24

Peptides

DNA (cytosine-5-)-methyltransferase: A
Heterochromatin protein one: BC
Histone H3.2: DE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
F

DNA (cytosine-5-)-methyltransferase

Heterochromatin protein one

Histone H3.2

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