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

Database of structural motifs in proteins.

K Guruprasad1, M S Prasad, G R Kumar

  • 1Centre for DNA Fingerprinting and Diagnostics (CDFD), Nacharam, Hyderabad - 500 076, India. guru@www.cdfd.org.in

Bioinformatics (Oxford, England)
|June 27, 2000
PubMed
Summary

The Database of Structural Motifs in Proteins (DSMP) offers comprehensive data on protein structural elements. This resource aids in protein sequence-structure analysis, prediction, modeling, and design.

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

Evolution of pathogenicity-associated genes in Rhizoctonia solani AG1-IA by genome duplication and transposon-mediated gene function alterations.

BMC biology·2023
Same author

Marker assisted improvement of low soil phosphorus tolerance in the bacterial blight resistant, fine-grain type rice variety, Improved Samba Mahsuri.

Scientific reports·2020
Same author

Marker Assisted Gene Pyramiding (MAGP) for bacterial blight and blast resistance into mega rice variety "Tellahamsa".

PloS one·2020
Same author

Marker Assisted Forward Breeding to Combine Multiple Biotic-Abiotic Stress Resistance/Tolerance in Rice.

Rice (New York, N.Y.)·2020
Same author

Identification and Characterization of a Large Effect QTL from Oryza glumaepatula Revealed Pi68(t) as Putative Candidate Gene for Rice Blast Resistance.

Rice (New York, N.Y.)·2020
Same author

Diverse Rice Landraces of North-East India Enables the Identification of Novel Genetic Resources for <i>Magnaporthe</i> Resistance.

Frontiers in plant science·2017

Area of Science:

  • Structural bioinformatics
  • Computational biology
  • Protein structure analysis

Background:

  • Protein Data Bank (PDB) contains vast structural information.
  • Identifying and cataloging protein structural motifs is crucial for understanding protein function.
  • Existing databases may lack comprehensive or easily accessible data on diverse structural motifs.

Purpose of the Study:

  • To create and present the Database of Structural Motifs in Proteins (DSMP).
  • To provide a web-based network service for accessing detailed information on protein structural motifs.
  • To facilitate sequence-structure analysis, prediction, modeling, and design.

Main Methods:

  • Utilized the PROMOTIF program for data extraction.
  • Integrated data into a web-based network service using SRS (Sequence Retrieval System).
  • Extracted data on helices, turns, loops, sheets, strands, and disulfide bridges.

Main Results:

  • DSMP contains data for 1028 representative protein chains and all 10,213 PDB proteins.
  • Data includes sequence, position, geometry, type, unique code, keywords, and crystal structure resolution.
  • 3D coordinates are available for most motifs in the representative dataset.

Conclusions:

  • DSMP provides a valuable resource for researchers studying protein structure.
  • The database supports various applications including sequence-structure analysis and protein design.
  • Web accessibility via SRS allows for flexible querying and data retrieval.

Related Experiment Videos