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

Discovering side-chain correlation in alpha-helices

T M Klingler1, D L Brutlag

  • 1Department of Biochemistry, Stanford University School of Medicine, California 94305-53075, USA.

Proceedings. International Conference on Intelligent Systems for Molecular Biology
|January 1, 1994
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

Noninvasive discrimination of rejection in cardiac allograft recipients using gene expression profiling.

American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons·2006
Same author

Automated construction of structural motifs for predicting functional sites on protein structures.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2003
Same author

BioProspector: discovering conserved DNA motifs in upstream regulatory regions of co-expressed genes.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing·2001
Same author

Bayesian segmentation of protein secondary structure.

Journal of computational biology : a journal of computational molecular cell biology·2000
Same author

Fast probabilistic analysis of sequence function using scoring matrices.

Bioinformatics (Oxford, England)·2000
Same author

A motion planning approach to flexible ligand binding.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

Proceedings of the 8th International Conference on Intelligent Systems for Molecular Biology (ISMB 2000). San Diego, California, USA. August 19-23, 2000.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2001
Same journal

Analysis of gene expression data with pathway scores.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

Towards a complete map of the protein space based on a unified sequence and structure analysis of all known proteins.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

Mining for putative regulatory elements in the yeast genome using gene expression data.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

A multiple alignment algorithm for metabolic pathway analysis using enzyme hierarchy.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
Same journal

Sequence database search using jumping alignments.

Proceedings. International Conference on Intelligent Systems for Molecular Biology·2000
See all related articles

This study introduces a novel method to analyze protein sequences by identifying amino acid correlations, revealing key interactions crucial for alpha-helix stability and packing. This approach uncovers hidden structural insights beyond traditional sequence analysis.

Area of Science:

  • Biochemistry
  • Structural Biology
  • Bioinformatics

Background:

  • Traditional protein sequence analysis often assumes residue independence, overlooking critical amino acid interactions.
  • Protein structure analyses highlight the significance of residue interactions for structural stability.

Purpose of the Study:

  • To develop and demonstrate a new method for discovering and representing sequence correlations in protein structures.
  • To analyze alpha-helical segments to identify important residue interactions.

Main Methods:

  • Developed an automated program to discover sequence correlations using statistical tests.
  • Utilized Bayesian networks for representing identified correlations.
  • Examined alpha-helical segments from known protein structures.

Related Experiment Videos

Main Results:

  • Identified sequence correlations representing physical and chemical interactions among amino acid side chains in alpha-helices.
  • These local interactions are important for stabilizing and packing alpha-helices.
  • Detected correlations in side-chain conformations indicating structural interactions not apparent in sequence correlations.

Conclusions:

  • The new representation effectively reveals significant amino acid interactions in protein sequences.
  • The identified interactions are vital for the stability and packing of alpha-helices.
  • The method can uncover structural interactions missed by traditional sequence-based approaches.