Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 49.16 kDa 
• Atom Count: 3,456 
• Modelled Residue Count: 405 
• Deposited Residue Count: 405 
• Unique protein chains: 1

 7U16

TMEM106B(120-254) protofilament from frontotemporal lobar degeneration with TDP-43 pathology (FTLD-TDP) type A (all cases combined).

• PDB DOI:  https://doi.org/10.2210/pdb7U16/pdb
• EM Map EMD-26279: EMDB EMDataResource

• Classification: TRANSPORT PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2022-02-19 Released: 2022-03-23 
• Deposition Author(s): Fitzpatrick, A.W.P., Stowell, M.H.B., Chang, A., Xiang, X., Wang, J., Lee, C., Arakhamia, T., Simjanoska, M., Wang, C., Carlomagno, Y., Zhang, G., Dhingra, S., Thierry, M., Perneel, J., Heeman, B., Forgrave, L.M., DeTure, M., DeMarco, M.L., Cook, C.N., Rademakers, R., Dickson, D., Petrucelli, L., Mackenzie, I.R.A.
• Funding Organization(s): National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.70 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Literature

Homotypic fibrillization of TMEM106B across diverse neurodegenerative diseases.

Chang, A., Xiang, X., Wang, J., Lee, C., Arakhamia, T., Simjanoska, M., Wang, C., Carlomagno, Y., Zhang, G., Dhingra, S., Thierry, M., Perneel, J., Heeman, B., Forgrave, L.M., DeTure, M., DeMarco, M.L., Cook, C.N., Rademakers, R., Dickson, D.W., Petrucelli, L., Stowell, M.H.B., Mackenzie, I.R.A., Fitzpatrick, A.W.P.

(2022) Cell 185: 1346-1355.e15

• PubMed: 35247328 
• DOI: https://doi.org/10.1016/j.cell.2022.02.026
• Primary Citation of Related Structures:  
  7U0Z, 7U10, 7U11, 7U12, 7U13, 7U14, 7U15, 7U16, 7U17, 7U18


• PubMed Abstract: 
  

Misfolding and aggregation of disease-specific proteins, resulting in the formation of filamentous cellular inclusions, is a hallmark of neurodegenerative disease with characteristic filament structures, or conformers, defining each proteinopathy. Here we show that a previously unsolved amyloid fibril composed of a 135 amino acid C-terminal fragment of TMEM106B is a common finding in distinct human neurodegenerative diseases, including cases characterized by abnormal aggregation of TDP-43, tau, or α-synuclein protein. A combination of cryoelectron microscopy and mass spectrometry was used to solve the structures of TMEM106B fibrils at a resolution of 2.7 Å from postmortem human brain tissue afflicted with frontotemporal lobar degeneration with TDP-43 pathology (FTLD-TDP, n = 8), progressive supranuclear palsy (PSP, n = 2), or dementia with Lewy bodies (DLB, n = 1). The commonality of abundant amyloid fibrils composed of TMEM106B, a lysosomal/endosomal protein, to a broad range of debilitating human disorders indicates a shared fibrillization pathway that may initiate or accelerate neurodegeneration.

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Organizational Affiliation: 

Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY 10027, USA; Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY 10032, USA; Taub Institute for Research on Alzheimer's Disease and the Aging Brain, Columbia University Irving Medical Center, 630 West 168th Street, New York, NY 10032, USA. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transmembrane protein 106B	A, B, C	135	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

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG (Subject of Investigation/LOI)	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

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.70 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-03-23 
Deposition Author(s): Fitzpatrick, A.W.P., Stowell, M.H.B., Chang, A., Xiang, X., Wang, J., Lee, C., Arakhamia, T., Simjanoska, M., Wang, C., Carlomagno, Y., Zhang, G., Dhingra, S., Thierry, M., Perneel, J., Heeman, B., Forgrave, L.M., DeTure, M., DeMarco, M.L., Cook, C.N., Rademakers, R., Dickson, D., Petrucelli, L., Mackenzie, I.R.A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)	United States	UO1NS110438

Revision History  

• Version 1.0: 2022-03-23
  Type: Initial release
  
• Version 1.1: 2022-04-27
  Changes: Database references