9HV7 | pdb_00009hv7

Crystal structure of Tetraspanin TSPAN10mutant Large Extracellular Loop (LEL)

PDB DOI: https://doi.org/10.2210/pdb9HV7/pdb

Classification: SIGNALING PROTEIN
Organism(s): Homo sapiens
Expression System: Drosophila melanogaster
Mutation(s): Yes

Deposited: 2024-12-24 Released: 2025-11-19
Deposition Author(s): Nagarathinam, K., Krey, T.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free:
0.228 (Depositor), 0.228 (DCC)
R-Value Work:
0.197 (Depositor), 0.197 (DCC)
R-Value Observed:
0.199 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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

Literature

Evolutionary relationship of Tetraspanins

Nagarathinam, K., Karakulova, D., Thiyagaraj, D., Krey, T.

To be published.

Macromolecule Content

Total Structure Weight: 27.98 kDa
Atom Count: 1,878
Modeled Residue Count: 228
Deposited Residue Count: 250
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tetraspanin-10	A, B	125	Homo sapiens	Mutation(s): 1 Gene Names: TSPAN10, OCSP
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H1Z9 (Homo sapiens) Explore Q9H1Z9 Go to UniProtKB: Q9H1Z9
PHAROS: Q9H1Z9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9H1Z9
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.228 (Depositor), 0.228 (DCC)
R-Value Work: 0.197 (Depositor), 0.197 (DCC)
R-Value Observed: 0.199 (Depositor)

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.3	α = 90
b = 62.3	β = 90
c = 117.48	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MxCuBE	data collection
XDS	data reduction
XSCALE	data scaling
PHASER	phasing
Coot	model building

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-11-19

Deposition Author(s):

Nagarathinam, K.

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2025-11-19
Type: Initial release

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.