Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 1368-mer - A1368 

Biological assembly 1 assigned by authors and generated by (software)

Macromolecule Content

• Total Structure Weight: 14.38 kDa 
• Atom Count: 1020 
• Modelled Residue Count: 132 
• Deposited Residue Count: 132 
• Unique protein chains: 1

2M5M

Atomic-resolution structure of a triplet cross-beta amyloid fibril

• PDB DOI: 10.2210/pdb2M5M/pdb
• BMRB: 19060
• EM Map EMD-2323: EMDB EMDataResource

• Classification: PROTEIN FIBRIL
• Organism(s): Rattus norvegicus
• Mutation(s): No 


• Deposited: 2013-02-27 Released: 2013-12-04 
• Deposition Author(s): Fitzpatrick, A.W.P., Debelouchina, G.T., Bayro, M.J., Clare, D.K., Caporini, M.A., Bajaj, V.S., Jaroniec, C.P., Wang, L., Ladizhansky, V., Muller, S., MacPhee, C.E., Waudby, C.A., Mott, H.R., de Simone, A., Knowles, T.P.J., Saibil, H.R., Vendruscolo, M., Orlova, E.V., Griffin, R.G., Dobson, C.M.

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Experimental Data Snapshot

• Method: SOLID-STATE NMR
• Conformers Calculated: 100 
• Conformers Submitted: 1 
• Selection Criteria: structures with the least restraint violations 

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• Method: ELECTRON MICROSCOPY
• Resolution: 12.2 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Atomic structure and hierarchical assembly of a cross-beta amyloid fibril.

Fitzpatrick, A.W., Debelouchina, G.T., Bayro, M.J., Clare, D.K., Caporini, M.A., Bajaj, V.S., Jaroniec, C.P., Wang, L., Ladizhansky, V., Muller, S.A., MacPhee, C.E., Waudby, C.A., Mott, H.R., De Simone, A., Knowles, T.P., Saibil, H.R., Vendruscolo, M., Orlova, E.V., Griffin, R.G., Dobson, C.M.

(2013) Proc Natl Acad Sci U S A 110: 5468-5473

• PubMed: 23513222 
• DOI: 10.1073/pnas.1219476110
• Primary Citation of Related Structures:  
  2M5K, 2M5M, 2M5N, 3ZPK


• PubMed Abstract: 
  

The cross-β amyloid form of peptides and proteins represents an archetypal and widely accessible structure consisting of ordered arrays of β-sheet filaments. These complex aggregates have remarkable chemical and physical properties, and the conversion of normally soluble functional forms of proteins into amyloid structures is linked to many debilitating human diseases, including several common forms of age-related dementia. Despite their importance, however, cross-β amyloid fibrils have proved to be recalcitrant to detailed structural analysis. By combining structural constraints from a series of experimental techniques spanning five orders of magnitude in length scale--including magic angle spinning nuclear magnetic resonance spectroscopy, X-ray fiber diffraction, cryoelectron microscopy, scanning transmission electron microscopy, and atomic force microscopy--we report the atomic-resolution (0.5 Å) structures of three amyloid polymorphs formed by an 11-residue peptide. These structures reveal the details of the packing interactions by which the constituent β-strands are assembled hierarchically into protofilaments, filaments, and mature fibrils.

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Organizational Affiliation: 

Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transthyretin	A, B, C, D, E, F, G, H, I, J, K, L	11	Rattus norvegicus	Mutation(s): 0  Gene Names: Ttr, Tt
UniProt
Find proteins for P02767 (Rattus norvegicus) Explore P02767  Go to UniProtKB:  P02767

Experimental Data & Validation

Experimental Data

• Method: SOLID-STATE NMR
• Conformers Calculated: 100 
• Conformers Submitted: 1 
• Selection Criteria: structures with the least restraint violations 
• OLDERADO: 2M5M Olderado

• Method: ELECTRON MICROSCOPY
• Resolution: 12.2 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-02-27 
• Released Date: 2013-12-04 
Deposition Author(s): Fitzpatrick, A.W.P., Debelouchina, G.T., Bayro, M.J., Clare, D.K., Caporini, M.A., Bajaj, V.S., Jaroniec, C.P., Wang, L., Ladizhansky, V., Muller, S., MacPhee, C.E., Waudby, C.A., Mott, H.R., de Simone, A., Knowles, T.P.J., Saibil, H.R., Vendruscolo, M., Orlova, E.V., Griffin, R.G., Dobson, C.M.

Revision History  

• Version 1.0: 2013-12-04
  Type: Initial release
  
• Version 1.1: 2018-07-18
  Changes: Author supporting evidence, Data collection
• Version 1.2: 2020-02-26
  Changes: Other