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

Recurring local sequence motifs in proteins

K F Han1, D Baker

  • 1Graduate Group in Biophysics, University of California, San Francisco 94143, USA.

Journal of Molecular Biology
|August 4, 1995
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

Interrelationships between social exclusion, mental health and wellbeing in adolescents: insights from a national <i>Youth Survey</i>.

Epidemiology and psychiatric sciences·2025
Same author

Anaesthetic management of people with multiple sclerosis.

Multiple sclerosis and related disorders·2023
Same author

Organic solvents and Multiple Sclerosis: the doubled risk dilemma.

Occupational medicine (Oxford, England)·2023
Same author

The role of laboratory testing in hospitalised and critically ill COVID-19-positive patients.

The Southern African journal of critical care : the official journal of the Critical Care Society·2023
Same author

Quality of amoxicillin/clavulanic acid oral formulations for intended veterinary use in the UK, Malaysia, Serbia and Thailand.

The Journal of small animal practice·2023
Same author

South African guidelines on the determination of death.

The Southern African journal of critical care : the official journal of the Critical Care Society·2023
Same journal

UPF3A and UPF3B shape the transcriptome cooperatively yet oppose cell function.

Journal of molecular biology·2026
Same journal

Antibody-secreting cells integrate efficient NMD with non‑canonical UPR signaling to maintain proteostasis and support massive immunoglobulin synthesis.

Journal of molecular biology·2026
Same journal

Small molecule stabilization of diverse amyloidogenic immunoglobulin light chains revealed by hydrogen-deuterium exchange mass spectrometry.

Journal of molecular biology·2026
Same journal

UPF1 at Work: Structural and Mechanistic Insights Into a Master Regulator of Nonsense-Mediated mRNA Decay.

Journal of molecular biology·2026
Same journal

Structural basis for the pro-amyloidogenic action and ligand binding of a novel W72R variant of human apolipoprotein A-I.

Journal of molecular biology·2026
Same journal

Cryo-EM Structure of the C. elegans Septin Tetramer Reveals a Revised Architecture and Conserved Positional Orthology.

Journal of molecular biology·2026
See all related articles

This study introduces an automated method to find sequence patterns across protein families. These identified motifs reveal conserved variations, aiding in understanding protein relationships and predicting structure.

Area of Science:

  • Computational Biology
  • Bioinformatics
  • Protein Sequence Analysis

Background:

  • Protein families share conserved sequence features, but identifying motifs that span across families is challenging.
  • Understanding sequence variations is crucial for protein function and structure prediction.

Purpose of the Study:

  • To develop an automated approach for identifying local sequence motifs that are conserved across different protein families.
  • To analyze patterns of variation within protein sequences and assess their significance compared to random sequences.

Main Methods:

  • Utilized cluster analysis on multiple sequence alignments of non-redundant protein families.
  • Examined recurring patterns of variation at single and contiguous positions (window lengths 1-13).
  • Compared observed clustering in natural protein sequences against simulated random sequences.

Related Experiment Videos

Main Results:

  • Developed a fully automated method for motif discovery transcending protein family boundaries.
  • Natural protein sequences exhibit significantly higher positional and segment-based clustering than random sequences.
  • Identified conserved patterns, including chemically similar amino acids, hydrophobic/hydrophilic residues, and conserved glycine residues.

Conclusions:

  • The automated motif identification method effectively abstracts information from multiple sequence alignments.
  • Discovered sequence patterns offer insights into protein relationships and can aid in protein structure prediction.
  • The findings highlight the non-random nature of protein sequence organization and conserved variations.