9BJO

Cryo-EM of Azo-ffsy fiber

  • Classification: PROTEIN FIBRIL
  • Organism(s): synthetic construct
  • Mutation(s): No 

  • Deposited: 2024-04-25 Released: 2024-09-18 
  • Deposition Author(s): Zia, A., Guo, J., Xu, B., Wang, F.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Cancer Institute (NIH/NCI)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Cell-Free Nonequilibrium Assembly for Hierarchical Protein/Peptide Nanopillars.

Guo, J.Zia, A.Qiu, Q.Norton, M.Qiu, K.Usuba, J.Liu, Z.Yi, M.Rich-New, S.T.Hagan, M.Fraden, S.Han, G.D.Diao, J.Wang, F.Xu, B.

(2024) J Am Chem Soc 146: 26102-26112

  • DOI: https://doi.org/10.1021/jacs.4c06775
  • Primary Citation of Related Structures:  
    9BJN, 9BJO

  • PubMed Abstract: 

    Cells contain intricate protein nanostructures, but replicating them outside of cells presents challenges. One such example is the vertical fibronectin pillars observed in embryos. Here, we demonstrate the creation of cell-free vertical fibronectin pillar mimics using nonequilibrium self-assembly. Our approach utilizes enzyme-responsive phosphopeptides that assemble into nanotubes. Enzyme action triggers shape changes in peptide assemblies, driving the vertical growth of protein nanopillars into bundles. These bundles, with peptide nanotubes serving as a template to remodel fibronectin, can then recruit collagen, which forms aggregates or bundles depending on their types. Nanopillar formation relies on enzyme-catalyzed nonequilibrium self-assembly and is governed by the concentrations of enzyme, protein, peptide, the structure of the peptide, and peptide assembly morphologies. Cryo-EM reveals unexpected nanotube thinning and packing after dephosphorylation, indicating a complex sculpting process during assembly. Our study demonstrates a cell-free method for constructing intricate, multiprotein nanostructures with directionality and composition.


  • Organizational Affiliation

    Department of Chemistry, Brandeis University, 415 South St., Waltham, Massachusetts 02453, United States.


Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
D-peptide ffsy5synthetic constructMutation(s): 0 
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM138756
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesCA142746

Revision History  (Full details and data files)

  • Version 1.0: 2024-09-18
    Type: Initial release
  • Version 1.1: 2024-10-02
    Changes: Data collection, Database references
  • Version 1.2: 2024-10-23
    Changes: Data collection, Structure summary