9WVI | pdb_00009wvi

Crystal structure of TONSL UBL mutant - R934W

• PDB DOI: https://doi.org/10.2210/pdb9WVI/pdb

• Classification: CHAPERONE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2025-09-20 Released: 2025-10-08 
• Deposition Author(s): Karmakar, A., Roy, S.
• Funding Organization(s): Science and Engineering Research Board (SERB)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 
  0.243 (Depositor), 0.242 (DCC) 
• R-Value Work: 
  0.204 (Depositor), 0.205 (DCC) 
• R-Value Observed: 
  0.206 (Depositor) 

Starting Model: in silico

Literature

Crystal structure of TONSL UBL mutant - R934W

Karmakar, A., Roy, S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 39.2 kDa 
• Atom Count: 2,656 
• Modeled Residue Count: 316 
• Deposited Residue Count: 340 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tonsoku-like protein	A, B, C, D	85	Homo sapiens	Mutation(s): 1  Gene Names: TONSL, IKBR, NFKBIL2
UniProt & NIH Common Fund Data Resources
Find proteins for Q96HA7 (Homo sapiens) Explore Q96HA7  Go to UniProtKB:  Q96HA7
PHAROS:  Q96HA7 GTEx:  ENSG00000160949

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free:  0.243 (Depositor), 0.242 (DCC) 
• R-Value Work:  0.204 (Depositor), 0.205 (DCC) 
• R-Value Observed: 0.206 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.884	α = 90
b = 81.109	β = 90
c = 102.497	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PROTEUM PLUS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-10-08 
Deposition Author(s): Karmakar, A., Roy, S.

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Funding Organization	Location	Grant Number
Science and Engineering Research Board (SERB)	India	CRG/2022/001895

Revision History  

• Version 1.0: 2025-10-08
  Type: Initial release