38NR | pdb_000038nr

Structure of TONSOKU (TSK)/BRU1 TPR domain bound to Histone H3.1 K4me1K27ac

PDB DOI: https://doi.org/10.2210/pdb38NR/pdb

Classification: NUCLEAR PROTEIN,CHAPERONE
Organism(s): Citrus unshiu, Arabidopsis thaliana
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2026-09-08 Released: 2026-10-21
Deposition Author(s): Davarinejad, H., Couture, J.F.
Funding Organization(s): Natural Sciences and Engineering Research Council (NSERC, Canada)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.09 Å
R-Value Free:
0.300 (Depositor), 0.303 (DCC)
R-Value Work:
0.262 (Depositor), 0.264 (DCC)
R-Value Observed:
0.263 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

Literature

TONSL/TONSOKU binding to histone H3.1 is required for DNA repair

Davarinejad, H., Couture, J.F.

(2026) Sci Adv

Macromolecule Content

Total Structure Weight: 126.23 kDa
Atom Count: 7,067
Modeled Residue Count: 987
Deposited Residue Count: 1,074
Unique protein chains: 2

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein TONSOKU	A, B	491	Citrus unshiu	Mutation(s): 0 Gene Names: TSK, CUMW_187040
UniProt
Find proteins for A0A2H5Q1B8 (Citrus unshiu) Explore A0A2H5Q1B8 Go to UniProtKB: A0A2H5Q1B8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2H5Q1B8
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone H3.1	C [auth X], D [auth W]	46	Arabidopsis thaliana	Mutation(s): 0
UniProt
Find proteins for P59226 (Arabidopsis thaliana) Explore P59226 Go to UniProtKB: P59226
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P59226
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 3 Unique
ID	Chains	Modified Residue	Modification Type	Formula	2D Diagram
MSE Query on MSE	A, B	MET	Selenomethionine	C₅ H₁₁ N O₂ Se
MLZ Query on MLZ	C [auth X], D [auth W]	LYS	Methylation	C₇ H₁₆ N₂ O₂
ALY Query on ALY	C [auth X], D [auth W]	LYS	Acetylation	C₈ H₁₆ N₂ O₃

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.09 Å
R-Value Free: 0.300 (Depositor), 0.303 (DCC)
R-Value Work: 0.262 (Depositor), 0.264 (DCC)
R-Value Observed: 0.263 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.105	α = 90
b = 92.796	β = 90
c = 206.236	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Coot	model building
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-21

Deposition Author(s):

Davarinejad, H.

Funding Organization	Location	Grant Number
Natural Sciences and Engineering Research Council (NSERC, Canada)	Canada	--

Revision History (Full details and data files)

Version 1.0: 2026-10-21
Type: Initial release