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RNA editing is a post-transcriptional modification where a precursor mRNA (pre-mRNA) nucleotide sequence is changed by base insertion, deletion, or modification. The extent of RNA editing varies from a few hundred bases, in mitochondrial DNA of trypanosomes, to a just single base, in nuclear genes of mammals. Even a single base change in the pre-mRNA can convert a codon for one amino acid into the codon for another amino acid or a stop codon. This type of re-coding can significantly affect the...
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RNA Polymerase (RNAP) is conserved in all animals, with bacterial, archaeal, and eukaryotic RNAPs sharing significant sequence, structural, and functional similarities. Among the three eukaryotic RNAPs, RNA Polymerase II is most similar to bacterial RNAP in terms of both structural organization and folding topologies of the enzyme subunits. However, these similarities are not reflected in their mechanism of action.
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Updated: Aug 20, 2025

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RNAME: A comprehensive database of RNA modification enzymes.

Fulei Nie1,2, Qiang Tang3,4, Ying Liu2

  • 1School of Public Health, North China University of Science and Technology, Tangshan 063210, China.

Computational and Structural Biotechnology Journal
|November 24, 2022
PubMed
Summary

A new database, RNAME, catalogs over 21,000 RNA modification enzymes from 456 species. This resource aids researchers by centralizing information on enzymes that install, recognize, and remove RNA modifications.

Keywords:
DatabaseEraserRNA modification enzymesRNA modificationsReaderWriter

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Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Genomics

Background:

  • RNA modifications are dynamically regulated by enzymes.
  • A limited number of RNA modification enzymes have been experimentally validated.
  • A centralized resource for RNA modification enzymes is needed.

Purpose of the Study:

  • To develop a comprehensive database for RNA modification enzymes.
  • To provide a valuable resource for researchers studying RNA modifications.

Main Methods:

  • Manual curation of RNA modification enzyme data.
  • Integration of enzyme information including 3D structures, domains, subcellular locations, and functions.
  • Database development and population.

Main Results:

  • The RNAME database (https://chenweilab.cn/rname/) was developed.
  • RNAME contains over 21,000 manually curated RNA modification enzymes.
  • Data spans 456 species and covers 7 common RNA modifications.

Conclusions:

  • RNAME serves as a comprehensive resource for RNA modification enzymes.
  • The database integrates diverse information, including structural and functional data.
  • RNAME is expected to significantly advance research in RNA modifications.