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Related Experiment Videos

tmRDB (tmRNA database).

Christian Zwieb1, Jan Gorodkin, Bjarne Knudsen

  • 1Department of Molecular Biology, The University of Texas Health Science Center at Tyler, 11937 US Highway 271, Tyler, TX 75708-3154, USA. zwieb@uthct.edu

Nucleic Acids Research
|January 10, 2003
PubMed
Summary
This summary is machine-generated.

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The tmRNA database (tmRDB) now includes 274 tmRNA sequences, aiding bacterial trans-translation research. This update provides aligned sequences and 3D models for understanding tmRNP structure and function.

Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Microbiology

Background:

  • tmRNA (transfer-messenger RNA) plays a crucial role in bacterial trans-translation.
  • tmRNA, along with associated proteins, forms the tmRNP complex.
  • This complex is vital for protein synthesis regulation in bacteria.

Purpose of the Study:

  • To update and expand the tmRNA database (tmRDB) with new sequences and structural information.
  • To provide researchers with a comprehensive resource for studying tmRNA and tmRNP.
  • To facilitate the understanding of tmRNP structure and function.

Main Methods:

  • Curated collection and distribution of tmRNA sequence data.
  • Manual alignment of tmRNA sequences, aided by computational tools.

Related Experiment Videos

  • Generation of 3D models of tmRNAs and associated proteins in PDB format.

    • Main Results:

    • The tmRDB now contains 274 tmRNA sequences from 10 bacterial groups, including 186 new entries.
    • tmRNA sequences are presented in both alphabetical and phylogenetic order.
    • Comparative sequence analysis supports secondary and tertiary structure determination, with 3D models available.

    Conclusions:

    • The updated tmRDB is a valuable resource for bacterial molecular biology research.
    • The availability of aligned sequences and 3D models advances the understanding of tmRNP structure and function.
    • tmRNP is likely functional across diverse bacterial species.