7TMC

TMEM106B singlet filament extracted from MSTD neurodegenerative human brain

PDB DOI: https://doi.org/10.2210/pdb7TMC/pdb
EM Map EMD-25995: EMDB EMDataResource

Classification: NEUROPEPTIDE
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2022-01-19 Released: 2023-01-25
Deposition Author(s): Hoq, M.R., Bharath, S.R., Jiang, W.
Funding Organization(s): National Institutes of Health/National Institute on Aging (NIH/NIA)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.25 Å
Aggregation State: FILAMENT
Reconstruction Method: HELICAL

wwPDB Validation 3D Report Full Report

This is version 2.1 of the entry. See complete history.

Literature

Cross-beta helical filaments of Tau and TMEM106B in gray and white matter of multiple system tauopathy with presenile dementia.

Hoq, M.R., Bharath, S.R., Hallinan, G.I., Fernandez, A., Vago, F.S., Ozcan, K.A., Li, D., Garringer, H.J., Vidal, R., Ghetti, B., Jiang, W.

(2023) Acta Neuropathol 145: 707-710

PubMed: 36952000 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1007/s00401-023-02563-3
Primary Citation of Related Structures:
7TMC, 8F9K

Organizational Affiliation

Department of Biological Sciences, Markey Center for Structural Biology, Purdue University, West Lafayette, IN, 47906, USA.

Macromolecule Content

Total Structure Weight: 96.12 kDa
Atom Count: 3,426
Modelled Residue Count: 405
Deposited Residue Count: 822
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, C	274	Homo sapiens	Mutation(s): 0 Gene Names: TMEM106B
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
Glycosylation
Glycosylation Sites: 4	Glycosylation Focus chain A Focus chain B Focus chain C	Go to GlyGen: Q9NUM4-1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG (Subject of Investigation/LOI) Query on NAG Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain G [auth A] SDF format, chain H [auth B] SDF format, chain I [auth B] SDF format, chain J [auth B] SDF format, chain K [auth B] SDF format, chain L [auth C] SDF format, chain M [auth C] SDF format, chain N [auth C] SDF format, chain O [auth C] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A] MOL2 format, chain H [auth B] MOL2 format, chain I [auth B] MOL2 format, chain J [auth B] MOL2 format, chain K [auth B] MOL2 format, chain L [auth C] MOL2 format, chain M [auth C] MOL2 format, chain N [auth C] MOL2 format, chain O [auth C] mmCIF format, chain D [auth A] mmCIF format, chain E [auth A] mmCIF format, chain F [auth A] mmCIF format, chain G [auth A] mmCIF format, chain H [auth B] mmCIF format, chain I [auth B] mmCIF format, chain J [auth B] mmCIF format, chain K [auth B] mmCIF format, chain L [auth C] mmCIF format, chain M [auth C] mmCIF format, chain N [auth C] mmCIF format, chain O [auth C]	D [auth A] E [auth A] F [auth A] G [auth A] H [auth B] D [auth A], E [auth A], F [auth A], G [auth A], H [auth B], I [auth B], J [auth B], K [auth B], L [auth C], M [auth C], N [auth C], O [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain K [auth B] Focus chain L [auth C] Focus chain M [auth C] Focus chain N [auth C] Focus chain O [auth C] Interactions & Density Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain K [auth B] Focus chain L [auth C] Focus chain M [auth C] Focus chain N [auth C] Focus chain O [auth C]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.25 Å
Aggregation State: FILAMENT
Reconstruction Method: HELICAL

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-01-25

Deposition Author(s):

Hoq, M.R.

Bharath, S.R.

Jiang, W.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute on Aging (NIH/NIA)	United States	5U01NS110437 and and 1RF1AG071177

Revision History (Full details and data files)

Version 1.0: 2023-01-25
Type: Initial release
Version 1.1: 2023-08-09
Changes: Database references
Version 2.0: 2023-11-22
Type: Coordinate replacement
Reason: Model orientation/position
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary
Version 2.1: 2024-10-30
Changes: Data collection, Structure summary

Prepare Data

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Help and Resources

7TMC

TMEM106B singlet filament extracted from MSTD neurodegenerative human brain

Cross-beta helical filaments of Tau and TMEM106B in gray and white matter of multiple system tauopathy with presenile dementia.

Entity ID: 1

UniProt & NIH Common Fund Data Resources

Entity Groups

Glycosylation

Sequence Annotations

Expand

Experimental Data

Structure Validation

Deposition Data

Revision History (Full details and data files)