SMTL ID : 8u14.1

Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A lysine 15 in complex with RNF168-UbcH5c (class 2)

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain I: C.31, H.33, C.51, C.54 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.31, I:H.33, I:C.51, I:C.54 ZN.2: 4 residues within 4Å: Chain I: C.16, C.19, C.36, C.39 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.16, I:C.19, I:C.36, I:C.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, Q. et al., Mechanisms of RNF168 nucleosome recognition and ubiquitylation. Mol.Cell (2024)

Release Date

2024-01-17

Peptides

Histone H3.1: AD
Histone H4: BE
Histone H2B type 1-J: CF
E3 ubiquitin-protein ligase RNF168: I
Ubiquitin-conjugating enzyme E2 D3: J
Histone H2A type 1-B/E: KL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
E

B
B

E
F

C
D

F
H

I
K

J
L

K
C

L
G

Histone H3.1

Histone H4

Histone H2B type 1-J

E3 ubiquitin-protein ligase RNF168

Ubiquitin-conjugating enzyme E2 D3

Histone H2A type 1-B/E

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