9GI8 | pdb_00009gi8

Solution structure of homodimeric TMEM106B

PDB DOI: https://doi.org/10.2210/pdb9GI8/pdb
BMRB: 34953

Classification: MEMBRANE PROTEIN
Organism(s): Homo sapiens
Mutation(s): No

Deposited: 2024-08-17 Released: 2025-11-26
Deposition Author(s): Schweimer, K., Perez-Borrajero, C., Hennig, J.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 100
Conformers Submitted: 20
Selection Criteria: structures with the least restraint violations

wwPDB Validation 3D Report Full Report

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

Literature

Zinc-mediated regulation of TMEM106B function in the endolysosomal pathway revealed through systematic identification of TRIM2/3 ubiquitination substrates

Perez-Borrajero, C., Hennig, J.

To be published.

Macromolecule Content

Total Structure Weight: 8.76 kDa
Atom Count: 605
Modeled Residue Count: 78
Deposited Residue Count: 78
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transmembrane protein 106B	A, B	39	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NUM4 (Homo sapiens) Explore Q9NUM4 Go to UniProtKB: Q9NUM4
PHAROS: Q9NUM4 GTEx: ENSG00000106460
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9NUM4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 100
Conformers Submitted: 20
Selection Criteria: structures with the least restraint violations

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-11-26

Deposition Author(s):

Perez-Borrajero, C.

Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	HE7291

Revision History (Full details and data files)

Version 1.0: 2025-11-26
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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.