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

New method for protein secondary structure assignment based on a simple topological descriptor.

Todd Taylor1, Margarita Rivera, Glenda Wilson

  • 1Laboratory for Structural Bioinformatics, School of Computational Sciences, George Mason University, Manassas, Virginia 20110, USA.

Proteins
|May 12, 2005
PubMed
Summary

A new five-element descriptor accurately assigns protein secondary structure. This method uses residue connectivity and main-chain topology, offering a robust and efficient alternative to existing techniques.

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

Co-expression-based models improve eQTL predictions for transcriptome-wide association studies and highlight new schizophrenia-associated genes.

Nature genetics·2026
Same author

Scalable Ni-Based Diffusion Synthesis of Highly Graphitic Nanointerlaced and Photopatternable Material with Fast Charge Transfer Kinetics.

Langmuir : the ACS journal of surfaces and colloids·2026
Same author

Epigenetic remodeling of sheep oocytes and embryos induced by maternal methionine supplementation.

Epigenetics·2025
Same author

Psychiatric disorders converge on common pathways but diverge in cellular context, spatial distribution, and directionality of genetic effects.

medRxiv : the preprint server for health sciences·2025
Same author

A cross-disorder analysis of CNVs finds novel loci and dose-dependent relationships of genes to psychiatric traits.

medRxiv : the preprint server for health sciences·2025
Same author

Immune, Developmental, and Synaptic Pathways Define Bipolar Disorder Clinical Heterogeneity.

medRxiv : the preprint server for health sciences·2025

Area of Science:

  • * Structural biology
  • * Bioinformatics
  • * Computational chemistry

Background:

  • * Secondary structure assignment is crucial for understanding protein function.
  • * Current methods often rely on hydrogen bonds or detailed geometric parameters.
  • * A need exists for computationally efficient and robust assignment methods.

Purpose of the Study:

  • * To introduce a novel, simple descriptor for protein residue characterization.
  • * To develop an accurate and efficient secondary structure assignment method based on this descriptor.
  • * To demonstrate the descriptor's independence from explicit hydrogen bond information and geometric parameters.

Main Methods:

  • * A five-element descriptor was derived using Delaunay tessellation of protein structures.

Related Experiment Videos

  • * The descriptor represents main-chain topology and residue connectivity.
  • * Rules were established based on this descriptor for secondary structure assignment.

    • Main Results:

    • * The descriptor accurately characterizes local protein structure.
    • * Secondary structure assignment based on the descriptor is robust and computationally efficient.
    • * The method shows good correlation with established secondary structure assignment techniques.

    Conclusions:

    • * The five-element descriptor provides a novel approach to protein structural analysis.
    • * This descriptor enables accurate, robust, and efficient secondary structure assignment.
    • * The method offers a valuable alternative for analyzing protein structures in bioinformatics.