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tmRDB (tmRNA database).

C Zwieb1, J Wower

  • 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
|December 11, 1999
PubMed
Summary
This summary is machine-generated.

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The tmRNA database (tmRDB) now includes 60 bacterial and organelle tmRNA sequences. This update enhances secondary structure alignments and provides 3D models for trans-translation research.

Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Genomics

Background:

  • tmRNA (10Sa RNA) is a crucial molecule in bacteria and organelles.
  • The tmRNA database (tmRDB) has been a resource for tmRNA sequences since 1997.
  • Understanding tmRNA is key to comprehending trans-translation.

Purpose of the Study:

  • To update and expand the tmRNA database (tmRDB) with new sequences.
  • To improve the accuracy of tmRNA secondary structure alignments.
  • To provide enhanced resources for studying tmRNA function in trans-translation.

Main Methods:

  • Curating and adding 17 new tmRNA sequences to the database.
  • Tabulating sequences and tmRNA-encoded tag peptides alphabetically and phylogenetically.
  • Improving secondary structure alignments to the level of individual base pairs.

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Main Results:

  • The tmRDB now contains a total of 60 tmRNA sequences.
  • Updated alignments provide improved secondary structure representations.
  • The database includes interactive 3D models and literature links for trans-translation.

Conclusions:

  • The expanded tmRDB facilitates research on tmRNA and trans-translation.
  • Enhanced structural data aids in understanding tmRNA molecular mechanisms.
  • tmRDB remains a valuable, updated resource for the scientific community.