SMTL ID : 7yrg.1

histone methyltransferase

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain K: C.191, C.235, C.237, C.240 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.191, K:C.235, K:C.237, K:C.240 ZN.3: 4 residues within 4Å: Chain L: C.191, C.235, C.237, C.240 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.191, L:C.235, L:C.237, L:C.240

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

SAM.2: 18 residues within 4Å: Chain K: H.37, Y.119, S.121, N.124, G.125, A.126, F.166, A.185, F.186, N.188, H.189, Y.223, F.227, F.228, F.234, C.235, E.236, C.237 10 PLIP interactions: 10 interactions with chain K Hydrophobic interactions: K:F.186 Hydrogen bonds: K:A.126, K:F.166, K:H.189, K:H.189, K:E.236 pi-Stacking: K:Y.119, K:Y.119, K:F.228, K:F.228 SAM.4: 18 residues within 4Å: Chain L: H.37, Y.119, S.121, N.124, G.125, A.126, F.166, A.185, F.186, N.188, H.189, Y.223, F.227, F.228, F.234, C.235, E.236, C.237 10 PLIP interactions: 10 interactions with chain L Hydrophobic interactions: L:F.186 Hydrogen bonds: L:A.126, L:F.166, L:H.189, L:H.189, L:E.236 pi-Stacking: L:Y.119, L:Y.119, L:F.228, L:F.228

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, L. et al., Structural insight into H4K20 methylation on H2A.Z-nucleosome by SUV420H1. Mol.Cell (2023)

Release Date

2023-12-13

Peptides

Histone H3.2: AG
Histone H4: BH
Histone H2A.Z: EI
Histone H2B 1.1: FJ
[histone H4]-N-methyl-L-lysine20 N-methyltransferase KMT5B: KL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

G
E

B
B

H
F

E
C

I
G

F
D

J
H

K
K

L
L

Histone H3.2

Histone H4

Histone H2A.Z

Histone H2B 1.1

[histone H4]-N-methyl-L-lysine20 N-methyltransferase KMT5B

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