6SDZ | pdb_00006sdz

transthyritin derived amyloid fibril from patient with hereditary V30M ATTR amyloidosis

• PDB DOI: https://doi.org/10.2210/pdb6SDZ/pdb
• EM Map EMD-10150: EMDB EMDataResource

• Classification: PROTEIN FIBRIL
• Organism(s): Homo sapiens
• Mutation(s): Yes 


• Deposited: 2019-07-29 Released: 2019-11-13 
• Deposition Author(s): Fritz, G., Agarwal, S., Faendrich, M.
• Funding Organization(s): German Research Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.97 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

Literature

Cryo-EM structure of a transthyretin-derived amyloid fibril from a patient with hereditary ATTR amyloidosis.

Schmidt, M., Wiese, S., Adak, V., Engler, J., Agarwal, S., Fritz, G., Westermark, P., Zacharias, M., Fandrich, M.

(2019) Nat Commun 10: 5008-5008

• PubMed: 31676763 
• DOI: https://doi.org/10.1038/s41467-019-13038-z
• Primary Citation Related Structures: 
  6SDZ


• PubMed Abstract: 
  

  ATTR amyloidosis is one of the worldwide most abundant forms of systemic amyloidosis. The disease is caused by the misfolding of transthyretin protein and the formation of amyloid deposits at different sites within the body. Here, we present a 2.97 Å cryo electron microscopy structure of a fibril purified from the tissue of a patient with hereditary Val30Met ATTR amyloidosis. The fibril consists of a single protofilament that is formed from an N-terminal and a C-terminal fragment of transthyretin. Our structure provides insights into the mechanism of misfolding and implies the formation of an early fibril state from unfolded transthyretin molecules, which upon proteolysis converts into mature ATTR amyloid fibrils.

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Organizational Affiliation: 
• Institute of Protein Biochemistry, Ulm University, 89081, Ulm, Germany.
Core Unit Mass Spectrometry and Proteomics, Ulm University, 89081, Ulm, Germany.
Institute of Microbiology, University of Hohenheim, 70599, Stuttgart, Germany.
Institute for Neuropathology, Faculty of Medicine, University of Freiburg, 79106, Freiburg, Germany.
Department of Immunology, Genetics, and Pathology, Uppsala University, Uppsala, SE-751 85, Sweden.
Department of Physics, Technical University Munich, 85748, Garching, Germany.
Institute of Protein Biochemistry, Ulm University, 89081, Ulm, Germany. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 11-mer - A11 

Biological assembly 1 generated by PISA (software)

Biological Assembly Evidence: mass spectrometry

Macromolecule Content 

• Total Structure Weight: 151.9 kDa 
• Atom Count: 7,909 
• Modeled Residue Count: 1,012 
• Deposited Residue Count: 1,397 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transthyretin	A, B, C, D, E, F, G, H, I, J, K	127	Homo sapiens	Mutation(s): 1
UniProt & NIH Common Fund Data Resources
Find proteins for P02766 (Homo sapiens) Explore P02766  Go to UniProtKB:  P02766
PHAROS:  P02766 GTEx:  ENSG00000118271

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.97 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	2.1
MODEL REFINEMENT	PHENIX
MODEL REFINEMENT	REFMAC

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2019-11-13 
Deposition Author(s): Fritz, G., Agarwal, S., Faendrich, M.

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Funding Organization	Location	Grant Number
German Research Foundation	Germany	SCHM 3276/1

Revision History  

• Version 1.0: 2019-11-13
  Type: Initial release
  
• Version 1.1: 2024-05-22
  Changes: Data collection, Database references