9VNM | pdb_00009vnm

Cryo-EM structure of hnRAC1-2,8beta fibril polymorph1


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.37 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation   3D Report Full Report


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Literature

Conformational Adaptability and Thermostability in alpha / beta-Peptide Fibrils Induced by beta-Amino Acid Substitution.

Li, Y.Li, D.Yao, Y.Liu, K.Zhao, Q.Zhang, Y.Xu, Y.Li, D.Sun, B.Liu, C.Dai, B.

(2025) Nano Lett 

  • DOI: https://doi.org/10.1021/acs.nanolett.5c05223
  • Primary Citation of Related Structures:  
    9VNK, 9VNM, 9VNN

  • PubMed Abstract: 

    The self-assembly of peptides into amyloid fibrils enables the design of functional biomaterials, yet the conformational constraints of α-peptides limit the attainable supramolecular diversity. Here, we introduce β-amino acids, β-phenylalanine (β-Phe), and β-homophenylalanine (β-hPhe) into the reversible fibril-forming core sequence hnRAC1 to generate α/β-peptide variants with distinct architectures and enhanced thermal stability. Cryo-EM reveals that β-modified peptides assemble into polymorphic fibrils with cross-β structures that differ markedly from each other and from native hnRAC1. Comparative structural analysis indicates that backbone extension by β-residues increases subunit conformational heterogeneity, enabling tighter packing and formation of more thermostable fibrils. Examination of intra- and intermolecular contacts shows that enhanced π-π stacking, hydrophobic interactions, hydrogen bonds, and electrostatic interactions likely contribute to fibril stabilization. These results show that minimal backbone modifications can remodel amyloid architecture, offering a generalizable strategy for designing structurally diverse and robust peptide-based biomaterials.


  • Organizational Affiliation
    • School of Automation and Intelligent Sensing, Shanghai Jiao Tong University, Shanghai 200240, China.

Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
GLY-SFE-GLY-GLY-ASN-ASP-ASN-SFE-GLY9Homo sapiensMutation(s): 0 
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.37 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.0

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-12-31
    Type: Initial release