7QV6

Amyloid fibril from the antimicrobial peptide aurein 3.3


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

The Cryo-EM structures of two amphibian antimicrobial cross-beta amyloid fibrils.

Bucker, R.Seuring, C.Cazey, C.Veith, K.Garcia-Alai, M.Grunewald, K.Landau, M.

(2022) Nat Commun 13: 4356-4356

  • DOI: https://doi.org/10.1038/s41467-022-32039-z
  • Primary Citation of Related Structures:  
    7QV5, 7QV6

  • PubMed Abstract: 

    The amyloid-antimicrobial link hypothesis is based on antimicrobial properties found in human amyloids involved in neurodegenerative and systemic diseases, along with amyloidal structural properties found in antimicrobial peptides (AMPs). Supporting this hypothesis, we here determined the fibril structure of two AMPs from amphibians, uperin 3.5 and aurein 3.3, by cryogenic electron microscopy (cryo-EM), revealing amyloid cross-β fibrils of mated β-sheets at atomic resolution. Uperin 3.5 formed a 3-blade symmetrical propeller of nine peptides per fibril layer including tight β-sheet interfaces. This cross-β cryo-EM structure complements the cross-α fibril conformation previously determined by crystallography, substantiating a secondary structure switch mechanism of uperin 3.5. The aurein 3.3 arrangement consisted of six peptides per fibril layer, all showing kinked β-sheets allowing a rounded compactness of the fibril. The kinked β-sheets are similar to LARKS (Low-complexity, Amyloid-like, Reversible, Kinked Segments) found in human functional amyloids.


  • Organizational Affiliation

    Centre for Structural Systems Biology, Hamburg, Germany.


Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Aurein-3.317Ranoidea raniformisMutation(s): 0 
UniProt
Find proteins for P82396 (Ranoidea raniformis)
Explore P82396 
Go to UniProtKB:  P82396
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP82396
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.1.3
MODEL REFINEMENTPHENIX1.19.1
MODEL REFINEMENTISOLDE1.0

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentLOM2018
Israel Science Foundation2111/20
Israel Ministry of Science and Technology3-15517
United States - Israel Binational Science Foundation (BSF)2017280
Joachim Herz StiftungAdd-on Fellowship

Revision History  (Full details and data files)

  • Version 1.0: 2022-06-29
    Type: Initial release
  • Version 1.1: 2022-08-10
    Changes: Database references