6WL8 | pdb_00006wl8

Cryo-EM of Form 2 peptide filament


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation 3D Report Full Report

Validation slider image for 6WL8

This is version 1.3 of the entry. See complete history

Literature

Structural analysis of cross alpha-helical nanotubes provides insight into the designability of filamentous peptide nanomaterials.

Wang, F.Gnewou, O.Modlin, C.Beltran, L.C.Xu, C.Su, Z.Juneja, P.Grigoryan, G.Egelman, E.H.Conticello, V.P.

(2021) Nat Commun 12: 407-407

  • DOI: https://doi.org/10.1038/s41467-020-20689-w
  • Primary Citation Related Structures: 
    6WKX, 6WKY, 6WL0, 6WL1, 6WL7, 6WL8, 6WL9

  • PubMed Abstract: 

    The exquisite structure-function correlations observed in filamentous protein assemblies provide a paradigm for the design of synthetic peptide-based nanomaterials. However, the plasticity of quaternary structure in sequence-space and the lability of helical symmetry present significant challenges to the de novo design and structural analysis of such filaments. Here, we describe a rational approach to design self-assembling peptide nanotubes based on controlling lateral interactions between protofilaments having an unusual cross-α supramolecular architecture. Near-atomic resolution cryo-EM structural analysis of seven designed nanotubes provides insight into the designability of interfaces within these synthetic peptide assemblies and identifies a non-native structural interaction based on a pair of arginine residues. This arginine clasp motif can robustly mediate cohesive interactions between protofilaments within the cross-α nanotubes. The structure of the resultant assemblies can be controlled through the sequence and length of the peptide subunits, which generates synthetic peptide filaments of similar dimensions to flagella and pili.


  • Organizational Affiliation
    • Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA, 22908, USA.

Macromolecule Content 

  • Total Structure Weight: 338.96 kDa 
  • Atom Count: 23,850 
  • Modeled Residue Count: 3,074 
  • Deposited Residue Count: 3,074 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Foundation (NSF, United States)United StatesNSF-DMR-1533958

Revision History  (Full details and data files)

  • Version 1.0: 2020-12-02
    Type: Initial release
  • Version 1.1: 2021-06-16
    Changes: Database references
  • Version 1.2: 2024-03-06
    Changes: Data collection, Database references
  • Version 1.3: 2025-06-04
    Changes: Data collection, Structure summary