SMTL ID : 6yn1.4 (3 other biounits)

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

Coordinates

PDB Format

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 5 PLIP interactions: 2 interactions with chain H, 3 interactions with chain A Hydrogen bonds: H:N.72, A:N.99, A:Q.101 Water bridges: H:Q.19, 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: 6 residues within 4Å: Chain C: E.69, N.72 Chain D: G.23, G.24 Chain F: N.99, Q.101 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain F Hydrogen bonds: C:N.72, F:N.99, F:Q.101, F:Q.101 Water bridges: C:E.69 GOL.4: 7 residues within 4Å: Chain F: T.5, S.7, P.15, V.16, G.17, R.18 Chain G: Y.15 6 PLIP interactions: 5 interactions with chain F, 1 interactions with chain G Hydrogen bonds: F:T.5, F:T.5, F:S.7, F:G.17, F:R.18, G:Y.15

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
e

F
j

B
f

G
k

C
g

H
l

D
h

I
m

E
i

J
n

Histone H2A

Histone H2B

Histone H3

Histone H4

Aprataxin and PNK-like factor

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