7OHF

Cryo-EM structure of pyrococcus furiosus apoferritin in nanofluidic channels


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Nanofluidic chips for cryo-EM structure determination from picoliter sample volumes.

Huber, S.T.Sarajlic, E.Huijink, R.Weis, F.Evers, W.H.Jakobi, A.J.

(2022) Elife 11

  • DOI: https://doi.org/10.7554/eLife.72629
  • Primary Citation of Related Structures:  
    7OHF

  • PubMed Abstract: 

    Cryogenic electron microscopy has become an essential tool for structure determination of biological macromolecules. In practice, the difficulty to reliably prepare samples with uniform ice thickness still represents a barrier for routine high-resolution imaging and limits the current throughput of the technique. We show that a nanofluidic sample support with well-defined geometry can be used to prepare cryo-EM specimens with reproducible ice thickness from picoliter sample volumes. The sample solution is contained in electron-transparent nanochannels that provide uniform thickness gradients without further optimisation and eliminate the potentially destructive air-water interface. We demonstrate the possibility to perform high-resolution structure determination with three standard protein specimens. Nanofabricated sample supports bear potential to automate the cryo-EM workflow, and to explore new frontiers for cryo-EM applications such as time-resolved imaging and high-throughput screening.


  • Organizational Affiliation

    Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, Delft, Netherlands.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ferritin176Pyrococcus furiosus COM1Mutation(s): 0 
Gene Names: PFC_02870
UniProt
Find proteins for I6V0I9 (Pyrococcus furiosus COM1)
Explore I6V0I9 
Go to UniProtKB:  I6V0I9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupI6V0I9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC3.1
MODEL REFINEMENTPHENIX1.13
MODEL REFINEMENTCoot0.8.9.2

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European Union852880
Netherlands Organisation for Scientific Research (NWO)NetherlandsNWO.STU.018-2.007

Revision History  (Full details and data files)

  • Version 1.0: 2021-08-11
    Type: Initial release
  • Version 1.1: 2022-02-16
    Changes: Database references, Derived calculations