SMTL ID : 8jhf.1

Native SUV420H1 bound to 167-bp nucleosome

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-2-2-2-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.275, C.319, C.321, C.324 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.319, A:C.321, A:C.324

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

SAM.2: 12 residues within 4Å: Chain A: Y.203, R.244, N.248, D.249, F.250, N.272, H.273, F.311, E.320, C.321 Chain G: R.1, H.2 12 PLIP interactions: 4 interactions with chain G, 8 interactions with chain A Hydrogen bonds: G:H.2, G:H.2, G:R.3, A:N.248, A:F.250, A:E.320 Salt bridges: G:H.2, A:R.244, A:D.249 pi-Stacking: A:Y.203, A:H.273 pi-Cation interactions: A:F.311

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lin, F. et al., Structural basis of nucleosomal H4K20 recognition and methylation by SUV420H1 methyltransferase. Cell Discov (2023)

Release Date

2023-11-15

Peptides

Histone-lysine N-methyltransferase KMT5B: A
Histone H3.1: BF
Histone H4: CG
Histone H2A.Z: DH
Histone H2B type 1-K: EI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
A

F
E

C
B

G
F

D
C

H
G

E
D

I
H

Histone-lysine N-methyltransferase KMT5B

Histone H3.1

Histone H4

Histone H2A.Z

Histone H2B type 1-K

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