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

CD-Search: protein domain annotations on the fly.

Aron Marchler-Bauer1, Stephen H Bryant

  • 1Computational Biology Branch, NCBI, National Library of Medicine, NIH, Building 38A, Room 5S508, 8600 Rockville Pike, Bethesda, MD 20894, USA. bauer@ncbi.nlm.nih.gov

Nucleic Acids Research
|June 25, 2004
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

InterPro: the protein sequence classification resource in 2025.

Nucleic acids research·2024
Same author

Database resources of the National Center for Biotechnology Information in 2025.

Nucleic acids research·2024
Same author

NCBI RefSeq: reference sequence standards through 25 years of curation and annotation.

Nucleic acids research·2024
Same author

Database resources of the National Center for Biotechnology Information.

Nucleic acids research·2023
Same author

The NIH Comparative Genomics Resource: addressing the promises and challenges of comparative genomics on human health.

BMC genomics·2023
Same author

The conserved domain database in 2023.

Nucleic acids research·2022

The Conserved Domain Search (CD-Search) service is a web-based tool that rapidly detects structural and functional domains in protein sequences using BLAST heuristics. It provides detailed visualizations of domain architectures and alignments, aiding protein analysis.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Structural Biology

Background:

  • Protein domains are fundamental units of structure and function.
  • Accurate identification of protein domains is crucial for understanding protein function and evolution.
  • Existing methods may lack speed or comprehensiveness in domain detection.

Purpose of the Study:

  • To introduce and describe the Conserved Domain Search (CD-Search) service.
  • To provide a fast and interactive tool for protein domain detection.
  • To offer comprehensive domain model searching and result visualization.

Main Methods:

  • Utilizes BLAST heuristics for rapid sequence searching.
  • Searches against a comprehensive collection of curated domain models.

Related Experiment Videos

  • Employs domain architecture cartoons and pairwise alignments for result display.

    • Main Results:

    • CD-Search provides fast and interactive detection of protein domains.
    • Results include visual representations of domain architectures.
    • Detailed alignments and 3D structure visualizations are available.

    Conclusions:

    • CD-Search is an effective web-based tool for identifying structural and functional protein domains.
    • The service enhances protein sequence analysis through interactive visualization.
    • It offers a valuable resource for researchers in molecular biology and bioinformatics.