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

Interhelical angle and distance preferences in globular proteins.

Sangyoon Lee1, Gregory S Chirikjian

  • 1Department of Mechanical Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA.

Biophysical Journal
|January 30, 2004
PubMed
Summary

This study reveals specific orientational preferences for interacting protein helices. Properly accounting for geometric effects shows distinct angle preferences in helix-helix interactions.

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

Effects of High-Pressure, Sous-Vide Cooking and Commercial Freezing on the Physicochemical Properties of Moisture-Enhanced Restructured Pork.

Food science of animal resources·2026
Same author

Effects of Sea Lettuce (Ulva prolifera) Extracted via Subcritical Water on the Physicochemical Properties of Pork Patties.

Food science of animal resources·2026
Same author

FOXC2 and WT1 regulate transcriptional reprogramming during the podocyte response to injury.

JCI insight·2026
Same author

Dual Polarization 2 × 2 Array Ku-Band Antenna with Improved Polarization Purity.

Sensors (Basel, Switzerland)·2026
Same author

Effect of Ultraviolet-C (UV-C) Irradiation on Foodborne Pathogen Inactivation in Prosciutto and Changes on Its Physicochemical Properties.

Food science of animal resources·2026
Same author

A Randomized Controlled Trial of the My Personal Health Guide Mobile Phone App on ART Adherence Among Young African American Men Who Have Sex With Men Living With HIV in the United States.

Open forum infectious diseases·2026

Area of Science:

  • Structural Biology
  • Protein Structure Analysis
  • Bioinformatics

Background:

  • Classical models like "knobs into holes" and "ridges into grooves" have long described helix interactions.
  • Recent studies suggest statistical biases from spherical geometry explain observed angular distributions, challenging classical models.

Purpose of the Study:

  • To re-evaluate orientational preferences in helix-helix interactions using the largest dataset of high-resolution protein structures.
  • To identify and correct for geometric effects and normalization artifacts in previous analyses.

Main Methods:

  • Analysis of helix-helix interactions across a large set of nonhomologous proteins at high resolution.
  • Examination of interhelical angle distributions as a function of spatial distance.

Related Experiment Videos

  • Development of a novel normalization method accounting for three interaction types (line-on-line, endpoint-to-line, endpoint-to-endpoint) and pre-binning corrections.

    • Main Results:

    • Identified pronounced preferences for helix-helix interactions at approximately +/-160 and +/-20 degrees in the "line-on-line" configuration.
    • Observed consistent preferences across varying distances (4-12 Å) between closest alpha-carbons.
    • Distinct orientational preferences were also found for "endpoint-to-line" and "endpoint-to-endpoint" interactions upon proper normalization.

    Conclusions:

    • Classical models may be oversimplified; geometric effects and interaction types are crucial for understanding helix-helix preferences.
    • The study provides a more accurate framework for analyzing protein helix packing, highlighting specific preferred angles.
    • Further research is needed to explore the local structural interactions driving these observed preferences.