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 Experiment Videos

Exploring protein folding trajectories using geometric spanners.

D Russel1, L Guibas

  • 1Computer Science Department, Stanford, CA 94305, USA. drussel@cs.stanford.edu

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
|March 12, 2005
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

Complications of tonsillectomy and adenoidectomy in 9409 children observed overnight.

CMAJ : Canadian Medical Association journal = journal de l'Association medicale canadienne·1986
Same author

Time out.

Nursing times·1986
Same author

Myospherulosis.

Journal of oral and maxillofacial surgery : official journal of the American Association of Oral and Maxillofacial Surgeons·1982
Same author

Pituitary and thyroid function before and after portacaval anastomosis in patients with normal livers.

The Journal of clinical endocrinology and metabolism·1980
Same author

Antithrombin functional activity after saturated and unsaturated fatty meals and fasting in normal subjects and some disease states.

Thrombosis research·1979
Same author

Antithrombin functional activity after a fatty meal in normal subjects, familial hyperlipidemia, and nephrotic syndrome.

The Journal of laboratory and clinical medicine·1977
Same journal

Trust, Reproducibility, and Progress: The Roles of Independent Blind Prediction and Assessment and Benchmarking in Computational Biology.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

The Evolving Cyberinfrastructure at the National Institutes of Health to Support Data and AI in Biomedical Research.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

Applications of AI & ML in Biomanufacturing of Cell and Gene Therapies.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

AI for Health: Leveraging Artificial Intelligence to Revolutionize Healthcare.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

Workshop Introduction: Advances of AI Methods in Single Cell Spatial Omics.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
Same journal

DRIVE-KG: Enhancing variant-phenotype association discovery in understudied complex diseases using heterogeneous knowledge graphs.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2026
See all related articles

Geometric spanners simplify protein 3-D structure analysis by highlighting key atom proximities. This method aids in visualizing protein folding trajectories and identifying secondary and tertiary structures.

Area of Science:

  • Computational biology
  • Structural biology
  • Graph theory

Background:

  • Understanding protein 3-D structure is crucial for deciphering biological function.
  • Analyzing protein folding dynamics involves complex, high-dimensional data.
  • Existing methods for visualizing protein structures can be computationally intensive.

Purpose of the Study:

  • To introduce a novel method for representing and analyzing protein 3-D structures.
  • To leverage geometric spanners for efficient visualization of protein folding.
  • To facilitate the detection of structural elements during protein folding.

Main Methods:

  • Utilizing geometric spanners, a type of sparse graph, to approximate inter-atom distances.
  • Identifying critical atom pairs and backbone region pairs representing key proximities.

Related Experiment Videos

  • Developing compact, multiresolution views of protein structural relationships.

    • Main Results:

    • Demonstrated that geometric spanners effectively capture essential proximities within protein structures.
    • Showcased the utility of these spanners for visualizing entire protein folding trajectories.
    • Enabled segmentation of folding trajectories for detailed analysis.

    Conclusions:

    • Geometric spanners offer a valuable tool for simplifying and visualizing complex protein structures.
    • This approach facilitates the identification of secondary and tertiary structure formation during folding.
    • The method provides a compact and efficient way to analyze protein conformational changes.