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Related Concept Videos

Electron Microscope Tomography and Single-particle Reconstruction01:07

Electron Microscope Tomography and Single-particle Reconstruction

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Transmission electron microscopy (TEM) can be used to determine the 3D structure of biological samples with the help of techniques such as electron microscope tomography and single-particle reconstruction. While single-particle reconstruction can examine macromolecules and macromolecular complexes in vitro conditions only, tomography permits the study of cell components or small cells in vivo.
Electron Tomography
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Cryo-electron Microscopy01:28

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Conventional electron microscopy (EM) involves dehydration, fixation, and staining of biological samples, which distorts the native state of biological molecules and results in several artifacts. Also, the high-energy electron beam damages the sample and makes it difficult to obtain high-resolution images. These issues can be addressed using cryo-EM, which uses frozen samples and gentler electron beams. The technique was developed by Jacques Dubochet, Joachim Frank, and Richard Henderson, for...
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Super-resolution fluorescence microscopy (SRFM) provides a better resolution than conventional fluorescence microscopy by reducing the point spread function (PSF). PSF is the light intensity distribution from a point that causes it to appear blurred. Due to PSF, each fluorescing point appears bigger than its actual size, and it is the PSF interference of nearby fluorophores that causes the blurred image. Various approaches to achieving higher resolution through SRFM have recently been...
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Related Experiment Video

Updated: Dec 16, 2025

A Robust Single-Particle Cryo-Electron Microscopy cryo-EM Processing Workflow with cryoSPARC, RELION, and Scipion
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A Robust Single-Particle Cryo-Electron Microscopy cryo-EM Processing Workflow with cryoSPARC, RELION, and Scipion

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High resolution single particle Cryo-EM refinement using JSPR.

Chen Sun1, Brenda Gonzalez1, Frank S Vago1

  • 1Department of Biological Sciences, Markey Center for Structural Biology, Purdue University, West Lafayette, IN, 47906, USA.

Progress in Biophysics and Molecular Biology
|July 6, 2020
PubMed
Summary
This summary is machine-generated.

JSPR software offers advanced single particle cryo-electron microscopy (cryo-EM) image processing and 3D reconstruction. This comprehensive suite refines viral and protein complex structures, including helical filaments, with new multi-aberration alignment features.

Keywords:
Aberration correctionBeam tiltDefocus refinementElliptic distortionGeneralized 2D alignmentsPhase shift refinement

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Area of Science:

  • Structural Biology
  • Biophysics
  • Computational Biology

Background:

  • Single particle cryo-electron microscopy (cryo-EM) is crucial for determining high-resolution structures of biological macromolecules.
  • Existing software suites may have limitations in handling diverse sample symmetries and advanced processing techniques.

Purpose of the Study:

  • To review the JSPR software, a comprehensive tool for single particle cryo-EM image processing and 3D reconstruction.
  • To highlight JSPR's capabilities in handling various symmetries and its newly implemented advanced features.

Main Methods:

  • JSPR software utilizes advanced algorithms for ab initio reconstruction and high-resolution refinement.
  • The software supports reconstructions of icosahedral viruses, protein complexes with arbitrary symmetries, and helical tubes/filaments.
  • New features include multi-aberration alignments and automatic masking optimization for resolution assessment using the "true" Fourier Shell Correlation (FSC).

Main Results:

  • JSPR has been successfully applied to reconstruct various biological structures, including viruses and protein complexes.
  • Demonstrated examples showcase the software's ability to achieve high-resolution reconstructions.
  • Newly implemented features enhance the accuracy and efficiency of cryo-EM data processing and resolution assessment.

Conclusions:

  • JSPR is a versatile and powerful software suite for single particle cryo-EM data analysis.
  • Its continuous development and implementation of advanced features make it a valuable tool for structural biology research.
  • JSPR facilitates detailed structural insights into biological macromolecules.