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

Protein Organization01:24

Protein Organization

Proteins are polymers of amino acid residues. They are versatile and responsible for different cellular functions, including DNA replication, molecular transport, catalysis, and structural support. Proteins have a hierarchical structure comprising at least three levels of organization: primary, secondary, and tertiary structure. Some large proteins have a quaternary structure where individual protein subunits are linked together.
The primary structure of a protein is its amino acid sequence.
Protein and Protein Structure02:15

Protein and Protein Structure

Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
A protein's shape is critical to its function. For example, an enzyme can...
Protein and Protein Structures02:15

Protein and Protein Structures

Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
A protein's shape is critical to its function. For example, an enzyme can...
Protein Folding01:22

Protein Folding

Overview
Protein Folding01:25

Protein Folding

Proteins are chains of amino acids linked together by peptide bonds. Upon synthesis, a protein folds into a three-dimensional conformation, critical to its biological function. Interactions between its constituent amino acids guide protein folding, and hence the protein structure is primarily dependent on its amino acid sequence.
Protein Structure Is Critical to Its Biological Function
Proteins perform a wide range of biological functions such as catalyzing chemical reactions, providing...
Protein Folding01:22

Protein Folding

Overview

You might also read

Related Articles

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

Sort by
Same author

Robotic Assisted Bronchoscopy with Endobronchial Ultrasound for the Evaluation of Multiple Pulmonary Nodules: A Multi-Center Registry.

Annals of the American Thoracic Society·2026
Same author

Perioperative chemotherapy for clinical stage IIIB gallbladder cancer: a review of the National Cancer Database.

International journal of clinical oncology·2026
Same author

A Gut Signature of Microbiome, Bile Acid, and Quorum-Sensing Profiles Is Associated with <i>Helicobacter pylori</i> Infection and Disease Progression.

Microorganisms·2026
Same author

Performance of bilateral bronchoalveolar lavage during routine transplant surveillance bronchoscopy changes management.

JHLT open·2026
Same author

Patient Factors Contributing to Wireless pH Monitoring Intolerance.

Journal of clinical gastroenterology·2025
Same author

New Animated Training and Certification Application for NIHSS.

Stroke·2025
Same journal

A CURE for Microbiology Experiment: Isolation and Characterization of Antimicrobial-Producing Lactic Acid Bacteria From Fermented Sichuan Pickle Against Pathogenic Bacteria.

Biochemistry and molecular biology education : a bimonthly publication of the International Union of Biochemistry and Molecular Biology·2026
Same journal

Innovative Spherical-Shaped Gel Electrophoresis Apparatuses for Scientific Demonstrations to High School Students.

Biochemistry and molecular biology education : a bimonthly publication of the International Union of Biochemistry and Molecular Biology·2026
Same journal

Evaluation of DeepSeek-Generated Biochemistry Clinical Cases for Teaching Purpose.

Biochemistry and molecular biology education : a bimonthly publication of the International Union of Biochemistry and Molecular Biology·2026
Same journal

How Students Use ChatGPT in Biochemistry Education: Evaluating Students' Prompts, Illustrations, and Reflective Assessments as Evidence.

Biochemistry and molecular biology education : a bimonthly publication of the International Union of Biochemistry and Molecular Biology·2026
Same journal

Click Before You Pipette: Building Foundational Pipetting Skills and Confidence With an Interactive Prelaboratory Simulation.

Biochemistry and molecular biology education : a bimonthly publication of the International Union of Biochemistry and Molecular Biology·2026
Same journal

A Semester-Long Laboratory in Molecular Biology and Biochemistry Focusing on the Discovery of Novel β-Lactamase Inhibitors From Streptomyces.

Biochemistry and molecular biology education : a bimonthly publication of the International Union of Biochemistry and Molecular Biology·2026
See all related articles

Related Experiment Video

Updated: Jun 2, 2026

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins
05:08

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins

Published on: July 8, 2025

Evaluation of software for introducing protein structure: Visualization and simulation.

Brian White1, Azmin Kahriman, Lois Luberice

  • 1Department of Biology, University of Massachusetts, Boston, Massachusetts 02125. brian.white@umb.edu.

Biochemistry and Molecular Biology Education : a Bimonthly Publication of the International Union of Biochemistry and Molecular Biology
|May 14, 2011
PubMed
Summary
This summary is machine-generated.

Protein structure simulation software helps students learn about protein folding and the forces that determine protein structure. Combining simulation with visualization may enhance understanding of these complex biological molecules.

More Related Videos

Modeling an Enzyme Active Site using Molecular Visualization Freeware
14:37

Modeling an Enzyme Active Site using Molecular Visualization Freeware

Published on: December 25, 2021

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

Related Experiment Videos

Last Updated: Jun 2, 2026

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins
05:08

Application of I TASSER, trRosetta, UCSF Chimera, HADDOCK server, and HEX loria for De Novo and In Silico Design of Proteins

Published on: July 8, 2025

Modeling an Enzyme Active Site using Molecular Visualization Freeware
14:37

Modeling an Enzyme Active Site using Molecular Visualization Freeware

Published on: December 25, 2021

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Educational Technology

Background:

  • Understanding protein structure is crucial in biology and biochemistry education.
  • Computer-based visualization tools are commonly used to teach protein structure.
  • Interactive visualization of how amino acid sequence changes affect protein structure remains a challenge.

Purpose of the Study:

  • To explore the use of visualization and simulation in teaching protein structure to undergraduate students.
  • To evaluate the learning outcomes associated with visualization and simulation methods.
  • To assess the effectiveness of a new software simulation, the Protein Investigator (PI).

Main Methods:

  • Freshman undergraduate students used visualization software and the Protein Investigator (PI) simulation.
  • The PI software simulates protein folding in two dimensions based on user-inputted amino acid sequences.
  • Learning outcomes were compared between students using visualization and simulation.

Main Results:

  • Simulation using the PI resulted in learning outcomes comparable to traditional visualization methods.
  • Students engaged with the PI to explore the effects of altered amino acid sequences on protein folding.
  • The PI facilitates interactive exploration of protein structure determinants.

Conclusions:

  • Protein structure simulation offers comparable learning outcomes to visualization.
  • The interactive nature of simulation enhances student exploration of protein structure.
  • A combined approach of visualization and simulation may be highly effective for teaching protein structure principles.