Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Electron Microscope Tomography and Single-particle Reconstruction01:07

Electron Microscope Tomography and Single-particle Reconstruction

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
Electron tomography can be performed either in TEM or STEM (scanning transmission...
Cryo-electron Microscopy01:28

Cryo-electron Microscopy

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...
Three-Dimensional Microscopy in Microbiology01:28

Three-Dimensional Microscopy in Microbiology

Three-dimensional imaging techniques are essential in cell biology, allowing researchers to visualize intricate cellular structures with high resolution. Two prominent methods, Differential Interference Contrast Microscopy (DIC) and Confocal Scanning Laser Microscopy (CSLM), provide distinct advantages for imaging live and thick specimens, respectively.Differential Interference Contrast MicroscopyDIC microscopy enhances contrast in transparent, unstained samples by converting phase...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Particulated autologous cartilage with platelet-rich plasma for osteochondral lesions of the talus in athletes: Return to sport and functional outcomes at 12 months.

The Journal of foot and ankle surgery : official publication of the American College of Foot and Ankle Surgeons·2026
Same author

AlignPCA-2D: PCA-reduced Euclidean vector alignment for 2D classification in cryo-EM.

Acta crystallographica. Section D, Structural biology·2026
Same author

Rational acquisition of laboratory equipment: an accurate mathematical model to estimate the trade-offs in shared and nonshared equipment.

Acta crystallographica. Section D, Structural biology·2026
Same author

Endoscopic treatment for greater trochanteric pain syndrome: one-year outcomes and comorbidity impact.

Acta orthopaedica Belgica·2026
Same author

Emotional eating and metabolic dysfunction-associated steatotic liver disease (MASLD): a pre-registered study in a clinical population.

Physiology & behavior·2025
Same author

Annexin A2 stabilizes the endoplasmic reticulum and actin cytoskeleton and influences the formation of reovirus factories.

Journal of virology·2025

Related Experiment Video

Updated: May 11, 2026

Do's and Don'ts of Cryo-electron Microscopy: A Primer on Sample Preparation and High Quality Data Collection for Macromolecular 3D Reconstruction
09:25

Do's and Don'ts of Cryo-electron Microscopy: A Primer on Sample Preparation and High Quality Data Collection for Macromolecular 3D Reconstruction

Published on: January 9, 2015

3DEM Loupe: Analysis of macromolecular dynamics using structures from electron microscopy.

R Nogales-Cadenas1, S Jonic, F Tama

  • 1National Center for Biotechnology-CSIC, Madrid 28049, Spain.

Nucleic Acids Research
|May 15, 2013
PubMed
Summary

Electron microscopy (EM) enables structural analysis of macromolecular complexes. A new web server, 3DEM Loupe, facilitates normal mode analysis of EM data to reveal protein conformational changes and functional movements.

More Related Videos

Single Particle Cryo-Electron Microscopy: From Sample to Structure
11:52

Single Particle Cryo-Electron Microscopy: From Sample to Structure

Published on: May 29, 2021

Analyzing Dynamic Protein Complexes Assembled On and Released From Biolayer Interferometry Biosensor Using Mass Spectrometry and Electron Microscopy
09:30

Analyzing Dynamic Protein Complexes Assembled On and Released From Biolayer Interferometry Biosensor Using Mass Spectrometry and Electron Microscopy

Published on: August 6, 2018

Related Experiment Videos

Last Updated: May 11, 2026

Do's and Don'ts of Cryo-electron Microscopy: A Primer on Sample Preparation and High Quality Data Collection for Macromolecular 3D Reconstruction
09:25

Do's and Don'ts of Cryo-electron Microscopy: A Primer on Sample Preparation and High Quality Data Collection for Macromolecular 3D Reconstruction

Published on: January 9, 2015

Single Particle Cryo-Electron Microscopy: From Sample to Structure
11:52

Single Particle Cryo-Electron Microscopy: From Sample to Structure

Published on: May 29, 2021

Analyzing Dynamic Protein Complexes Assembled On and Released From Biolayer Interferometry Biosensor Using Mass Spectrometry and Electron Microscopy
09:30

Analyzing Dynamic Protein Complexes Assembled On and Released From Biolayer Interferometry Biosensor Using Mass Spectrometry and Electron Microscopy

Published on: August 6, 2018

Area of Science:

  • Structural biology
  • Biophysics
  • Computational biology

Background:

  • Electron microscopy (EM) offers structural insights into macromolecular complexes at 3-20 Å resolution.
  • Normal mode analysis (NMA) is a powerful technique for predicting protein conformational dynamics, typically applied to high-resolution structures.

Purpose of the Study:

  • To introduce 3DEM Loupe, a novel web server for performing normal mode analysis on electron microscopy (EM) data.
  • To provide a user-friendly platform for exploring potential conformational changes in macromolecular complexes from EM structures.

Main Methods:

  • Development of a web server, 3DEM Loupe, integrating normal mode analysis algorithms.
  • Utilizing uploaded EM density maps as input for the analysis.
  • Generating 3D visualizations, animations, and movies to represent conformational dynamics.

Main Results:

  • 3DEM Loupe enables normal mode analysis on EM structures through an intuitive interface.
  • The server facilitates the exploration of protein functional movements, such as those involved in ligand binding or protein-protein interactions.
  • Users can visualize and analyze potential conformational changes directly from EM data.

Conclusions:

  • 3DEM Loupe democratizes the application of normal mode analysis to EM structural data.
  • The tool aids in understanding the functional mechanisms of macromolecular machines by predicting conformational flexibility.
  • This approach enhances the interpretation of EM data for studying protein dynamics.