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

MMDB: an ASN.1 specification for macromolecular structure

H Ohkawa1, J Ostell, S Bryant

  • 1National Center for Biotechnology Information, National Library of Medicine, National Institute of Health, Bethesda, MD 20894, USA.

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

Acute haemolytic reaction secondary to an ABO minor mismatched platelet transfusion from a group A blood donor.

Transfusion medicine (Oxford, England)·2019
Same author

Fabrication of a Self-Supported Nanoparticle-Decorated Amphipathic Film at a Liquid/Liquid Interphase.

Langmuir : the ACS journal of surfaces and colloids·2017
Same author

Infection of turnip and radish storage roots with Agrobacterium rhizogenes.

Plant cell reports·2013
Same author

Regeneration of horseradish hairy roots incited by Agrobacterium rhizogenes infection.

Plant cell reports·2013
Same author

Is the serum vitamin D-parathyroid hormone relationship influenced by obesity in children?

Hormone research in paediatrics·2013
Same author

Elite athletes and oral health.

International journal of sports medicine·2011
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

We developed a new data exchange specification for biological macromolecule structures. This enhances the Molecular Modeling Database (MMDB) for advanced molecular modeling applications.

Area of Science:

  • Structural Biology
  • Bioinformatics
  • Computational Chemistry

Background:

  • The Protein Data Bank (PDB) is a primary source for macromolecular structure data.
  • Existing formats may limit advanced computational analysis and data integration.
  • The National Center for Biotechnology Information (NCBI) supports the Molecular Modeling Database (MMDB).

Purpose of the Study:

  • To create a standardized data exchange specification for 3D macromolecular structures.
  • To improve data accuracy and facilitate computational analysis within the MMDB.
  • To support the development of intelligent molecular modeling applications.

Main Methods:

  • Developed a hierarchical data description using connectivity graphs.
  • Linked 3D coordinates directly to nodes within the chemical graph.

Related Experiment Videos

  • Extensively validated PDB data during conversion to the new format.

    • Main Results:

    • Established a robust MMDB specification for macromolecular structure data.
    • Enabled direct generation of homology-derived structures via chemical group alignment.
    • Ensured accurate chemical and spatial structure descriptions through data validation.

    Conclusions:

    • The new specification enhances the MMDB as a valuable resource for structural biology.
    • Facilitates advanced molecular modeling by improving data representation and accuracy.
    • Supports the development of intelligent applications leveraging structural information.