SMTL ID : 9it4.1

Structure of Clr4 catalyzing histone H3 K9 methylation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

hetero-1-1-mer

Ligands

1 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 19 residues within 4Å: Chain A: K.149, G.150, W.151, G.189, I.190, T.191, Y.192, R.217, F.218, F.219, N.220, H.221, Y.262, R.285, Q.287, C.288, K.289, C.290, L.299 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:W.151, A:T.191, A:Y.192, A:R.217, A:R.217, A:H.221, A:H.221, A:R.285, A:R.285, A:K.289

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain A: C.71, C.89, C.118, C.122 Ligands: ZN.3, ZN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.71, A:C.89, A:C.118, A:C.122 ZN.3: 6 residues within 4Å: Chain A: C.71, C.73, C.79, C.87 Ligands: ZN.2, ZN.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.71, A:C.73, A:C.79, A:C.87 ZN.4: 7 residues within 4Å: Chain A: C.71, C.79, C.118, C.124, C.128 Ligands: ZN.2, ZN.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.79, A:C.118, A:C.124, A:C.128 ZN.5: 4 residues within 4Å: Chain A: C.223, C.288, C.290, C.295 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.223, A:C.288, A:C.290, A:C.295

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Du, Y.X. et al., Mechanism of Histone H3K9 Methyltransferase Clr4 Regulation by Proximal H3K14 Ubiquitination in-cis. To Be Published

Release Date

2025-04-30

Peptides

Histone-lysine N-methyltransferase, H3 lysine-9 specific: A
Histone H3.1/H3.2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
F

Histone-lysine N-methyltransferase, H3 lysine-9 specific

Histone H3.1/H3.2

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