SMTL ID : 8grq.1

Cryo-EM structure of BRCA1/BARD1 bound to H2AK127-UbcH5c-Ub nucleosome

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain K: C.19, C.22, C.39, C.42 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.19, K:C.22, K:C.39, K:C.42 ZN.2: 6 residues within 4Å: Chain K: C.34, H.36, C.56, C.59, K.60, D.62 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.34, K:H.36, K:C.56, K:C.59 ZN.3: 5 residues within 4Å: Chain L: C.25, C.28, R.33, C.46, C.49 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.25, L:C.28, L:C.46, L:C.49 ZN.4: 4 residues within 4Å: Chain L: C.41, H.43, C.58, C.61 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:C.41, L:H.43, L:H.43, L:C.58, L:C.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ai, H.S. et al., Synthetic E2-Ub-nucleosome conjugates for studying nucleosome ubiquitination. Chem (2023)

Release Date

2023-04-12

Peptides

Histone H3: AE
Histone H4: BF
Histone H2A type 1-H: CG
H2B: DH
Breast cancer type 1 susceptibility protein: K
BRCA1-associated RING domain protein 1: L
Ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast), isoform CRA_a: M

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
E

B
B

F
F

C
C

G
G

D
D

H
H

K
K

L
M

M
N

Histone H3

Histone H4

Histone H2A type 1-H

H2B

Breast cancer type 1 susceptibility protein

BRCA1-associated RING domain protein 1

Ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast), isoform CRA_a

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