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

Protein conformational space in higher order phi-Psi maps.

Gregory E Sims1, In-Geol Choi, Sung-Hou Kim

  • 1Biophysics Graduate Group and Department of Chemistry, University of California, Berkeley, CA 94720, USA.

Proceedings of the National Academy of Sciences of the United States of America
|January 11, 2005
PubMed
Summary

Researchers mapped protein conformational space for peptides, revealing a significant reduction in sampled conformations. This provides a clearer understanding of allowed protein structures based on experimental data.

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

A CRISPR interference system for tunable gene expression integrated with a promoter library for <i>Eubacterium callanderi</i> KIST612, an acetogen of functional diversity and versatility.

Microbiology spectrum·2026
Same author

Feature Frequency Profile (FFP) Method: A Language Model for Whole-Genome ("Organism") Phylogeny.

Methods in molecular biology (Clifton, N.J.)·2026
Same author

Gut microbial extracellular vesicles modulate the development of metabolic dysfunction-associated steatohepatitis through the gut-liver axis.

Pharmacological research·2026
Same author

A modular biodevice assembly tool kit for combinatorial screening and benchmarking multiple cell surface display platforms in Escherichia coli.

Journal of biological engineering·2026
Same author

Molecular biomarkers associated with environmental naphthalene exposure in the respiratory system.

The Science of the total environment·2026
Same author

<i>Croceiramulus getboli</i> gen. nov., sp. nov., a marine bacterium isolated from the tidal flat.

International journal of systematic and evolutionary microbiology·2025

Area of Science:

  • Structural biology
  • Computational biophysics

Background:

  • Understanding protein structure is crucial for molecular biology.
  • The vast conformational space of peptides presents a challenge for structural prediction.

Purpose of the Study:

  • To map and analyze the conformational space of peptides.
  • To identify regions of allowed conformations based on experimental data.

Main Methods:

  • Multidimensional scaling was applied to a data matrix of angular distances.
  • Analysis was performed on phi-Psi values from high-resolution protein structures for peptides of 2-7 residues.

Main Results:

  • Global maps demonstrated clustering of peptide conformations.
  • A significant reduction in experimentally sampled conformational space was observed.

Related Experiment Videos

  • Each map serves as a higher-order phi-Psi plot indicating allowed conformational regions.

    • Conclusions:

    • The study successfully reduced the complexity of protein conformational space.
    • The generated maps provide insights into the physically accessible conformations of peptides.