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Related Experiment Videos

Structural exon database, SEDB, mapping exon boundaries on multiple protein structures.

Chesley M Leslin1, Alex Abyzov, Valentin A Ilyin

  • 1Department of Biology, Northeastern University, 360 Huntington Avenue, Boston, MA 02115, USA.

Bioinformatics (Oxford, England)
|February 28, 2004
PubMed
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The Structural Exon Database (SEDB) links gene structure to protein 3D structures. Researchers can explore exon-intron organization and its impact on protein function and evolution across eukaryotes.

Area of Science:

  • Genomics
  • Structural Biology
  • Evolutionary Biology

Background:

  • Comparative analysis of gene structure and protein architecture is crucial for understanding evolution and protein functionality.
  • The Structural Exon Database (SEDB) provides a web interface for accessing this information.

Purpose of the Study:

  • To present the Structural Exon Database (SEDB) and its capabilities.
  • To enable researchers to study correlations between gene structure and protein properties across eukaryotes.

Main Methods:

  • Developing a web-based application (SEDB) for retrieving gene exon/intron organization.
  • Mapping exon boundaries and intron phases onto multiple structural alignments.
  • Integrating SEDB with Friend, a multiple sequence/structure viewer for simultaneous visualization.

Related Experiment Videos

Main Results:

  • SEDB allows retrieval of exon/intron organization data.
  • Exon boundaries and intron phases can be mapped onto structural alignments.
  • Simultaneous visualization of sequence and structure alignments with exon boundaries is possible.

Conclusions:

  • SEDB facilitates the study of gene structure-function relationships.
  • The database aids in understanding evolutionary relationships through comparative analysis of gene and protein structures.
  • Researchers can investigate how gene organization influences protein properties in eukaryotic organisms.