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

Motif3D: Relating protein sequence motifs to 3D structure.

Anna Gaulton1, Teresa K Attwood

  • 1School of Biological Sciences and Department of Computer Science, University of Manchester, Manchester M13 9PT, UK. agaulton@bioinf.man.ac.uk

Nucleic Acids Research
|June 26, 2003
PubMed
Summary

Motif3D is a web tool for visualizing sequence motifs on 3D protein structures. It specifically aids in mapping PRINTS database motifs and G protein-coupled receptor fingerprints.

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

Biological databases in the age of generative artificial intelligence.

Bioinformatics advances·2025
Same author

The ChEMBL Database in 2023: a drug discovery platform spanning multiple bioactivity data types and time periods.

Nucleic acids research·2023
Same author

Bioschemas training profiles: A set of specifications for standardizing training information to facilitate the discovery of training programs and resources.

PLoS computational biology·2023
Same author

Illuminating the druggable genome through patent bioactivity data.

PeerJ·2023
Same author

Biomedical data analyses facilitated by open cheminformatics workflows.

Journal of cheminformatics·2023
Same author

Validation of lipid-related therapeutic targets for coronary heart disease prevention using human genetics.

Nature communications·2021

Area of Science:

  • Structural Bioinformatics
  • Computational Biology
  • Molecular Visualization

Background:

  • Sequence motifs are crucial for protein function and classification.
  • Visualizing motifs on 3D structures aids in understanding protein architecture and interactions.
  • Existing tools may lack specific functionalities for certain protein families or databases.

Purpose of the Study:

  • To develop Motif3D, a web-based tool for visualizing sequence motifs on 3D protein structures.
  • To enable the mapping of PRINTS database motifs onto protein structures.
  • To provide specialized visualization for rhodopsin-like G protein-coupled receptors.

Main Methods:

  • Development of a web-based interface for Motif3D.
  • Integration of the PRINTS database for motif retrieval.

Related Experiment Videos

  • Implementation of 3D structure visualization capabilities.
  • Specific module for mapping G protein-coupled receptor fingerprints onto bovine rhodopsin.

    • Main Results:

    • Motif3D successfully visualizes sequence motifs on 3D protein structures.
    • The tool allows for the mapping of PRINTS database motifs.
    • Specialized functionality enables fingerprint motif visualization for rhodopsin-like receptors on the bovine rhodopsin structure.

    Conclusions:

    • Motif3D provides a valuable resource for researchers studying protein sequence motifs and structures.
    • The tool enhances the understanding of protein families like G protein-coupled receptors through motif visualization.
    • Motif3D is accessible via a web interface for broad usability.