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)

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
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 9WVI

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

Literature

Crystal structure of TONSL UBL mutant - R934W

Karmakar, A., Roy, S.

To be published.

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

Find similar proteins by:

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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q96HA7
Sequence Annotations Expand
Reference Sequence

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

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-10-08

Deposition Author(s):

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

Revision History (Full details and data files)

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

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.