SMTL ID : 6yn1.2 (3 other biounits)

Crystal structure of histone chaperone APLF acidic domain bound to the histone H2A-H2B-H3-H4 octamer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

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

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: N.99, Q.101 Chain H: E.69, N.72 Chain I: G.23, G.24 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain H Hydrogen bonds: A:N.99, A:Q.101, H:N.72 Water bridges: A:N.99 GOL.2: 4 residues within 4Å: Chain C: R.27 Chain D: T.12, P.14, R.18 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:T.12, D:T.12, D:R.18, D:R.18 GOL.3: 7 residues within 4Å: Chain C: E.69, N.72 Chain D: G.23, G.24 Chain F: N.99, I.100, Q.101 6 PLIP interactions: 3 interactions with chain F, 3 interactions with chain C Hydrogen bonds: F:N.99, F:N.99, F:Q.101, C:E.69, C:N.72 Water bridges: C:Q.19 GOL.4: 7 residues within 4Å: Chain H: Y.63, E.97 Chain I: V.42, F.43, N.46, Q.75, R.77 5 PLIP interactions: 2 interactions with chain H, 3 interactions with chain I Hydrogen bonds: H:R.92, H:E.97, I:V.42, I:N.46, I:R.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Corbeski, I. et al., Chaperoning of the histone octamer by the acidic domain of DNA repair factor APLF. Sci Adv (2022)

Release Date

2021-11-17

Peptides

Histone H2A: AF
Histone H2B: BG
Histone H3: CH
Histone H4: DI
Aprataxin and PNK-like factor: EJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

F
P

B
L

G
Q

C
M

H
R

D
N

I
S

E
O

J
T

Histone H2A

Histone H2B

Histone H3

Histone H4

Aprataxin and PNK-like factor

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