SMTL ID : 9d3k.1

Two Dsup molecules in complex with the nucleosome open from both sides

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.70 Å

Oligo State

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

Ligands

2 x PRO- PRO- ARG- ARG- SER- SER- ARG- LEU: Damage suppressor protein(Non-covalent)

PRO-PRO-ARG-ARG-SER-SER-ARG-LEU.1: 13 residues within 4Å: Chain C: E.42, Y.43, A.46, E.47, E.50, D.76, E.78 Chain D: Q.14, V.15, H.16, E.72, L.73, H.76 14 PLIP interactions: 6 interactions with chain D, 8 interactions with chain C Hydrophobic interactions: D:Q.14, D:V.15, D:E.72 Hydrogen bonds: D:Q.14, D:E.72, C:E.42, C:E.47, C:E.50 Salt bridges: D:E.80, C:E.42, C:E.47, C:E.50, C:D.76, C:E.78 PRO-PRO-ARG-ARG-SER-SER-ARG-LEU.2: 13 residues within 4Å: Chain G: E.42, Y.43, A.46, E.47, E.50, D.76, E.78 Chain H: Q.13, V.14, E.71, L.72, H.75, E.79 8 PLIP interactions: 5 interactions with chain G, 3 interactions with chain H Hydrogen bonds: G:E.47, G:E.50, H:Q.13, H:Q.13 Salt bridges: G:E.42, G:E.47, G:D.76, H:E.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alegrio-Louro, J. et al., Structural basis of nucleosome recognition by the conserved Dsup and HMGN nucleosome-binding motif. Genes Dev. (2025)

Release Date

2025-08-13

Peptides

Histone H3.2: AE
Histone H4: BF
Histone H2A type 2-A: CG
Histone H2B type 1-M: D
Histone H2B type 1-M: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
E

B
B

F
F

C
C

G
G

D
D

H
H

Histone H3.2

Histone H4

Histone H2A type 2-A

Histone H2B type 1-M

Histone H2B type 1-M

Related Entries With Identical Sequence