MODOMICS: a database of RNA modification pathways. 2021 update.
Base Sequence
Cardiovascular Diseases
/ genetics
Computer Graphics
Databases, Nucleic Acid
Databases, Protein
Datasets as Topic
Enzymes
/ genetics
Gastrointestinal Diseases
/ genetics
Hematologic Diseases
/ genetics
Humans
Internet
Mental Disorders
/ genetics
Musculoskeletal Diseases
/ genetics
Mutation
Neoplasms
/ genetics
Neurodegenerative Diseases
/ genetics
RNA
/ genetics
RNA Processing, Post-Transcriptional
Ribonucleosides
/ genetics
Saccharomyces cerevisiae
/ genetics
User-Computer Interface
Journal
Nucleic acids research
ISSN: 1362-4962
Titre abrégé: Nucleic Acids Res
Pays: England
ID NLM: 0411011
Informations de publication
Date de publication:
07 01 2022
07 01 2022
Historique:
accepted:
01
12
2021
revised:
16
10
2021
received:
29
09
2021
pubmed:
12
12
2021
medline:
23
2
2022
entrez:
11
12
2021
Statut:
ppublish
Résumé
The MODOMICS database has been, since 2006, a manually curated and centralized resource, storing and distributing comprehensive information about modified ribonucleosides. Originally, it only contained data on the chemical structures of modified ribonucleosides, their biosynthetic pathways, the location of modified residues in RNA sequences, and RNA-modifying enzymes. Over the years, prompted by the accumulation of new knowledge and new types of data, it has been updated with new information and functionalities. In this new release, we have created a catalog of RNA modifications linked to human diseases, e.g., due to mutations in genes encoding modification enzymes. MODOMICS has been linked extensively to RCSB Protein Data Bank, and sequences of experimentally determined RNA structures with modified residues have been added. This expansion was accompanied by including nucleotide 5'-monophosphate residues. We redesigned the web interface and upgraded the database backend. In addition, a search engine for chemically similar modified residues has been included that can be queried by SMILES codes or by drawing chemical molecules. Finally, previously available datasets of modified residues, biosynthetic pathways, and RNA-modifying enzymes have been updated. Overall, we provide users with a new, enhanced, and restyled tool for research on RNA modification. MODOMICS is available at https://iimcb.genesilico.pl/modomics/.
Identifiants
pubmed: 34893873
pii: 6454677
doi: 10.1093/nar/gkab1083
pmc: PMC8728126
doi:
Substances chimiques
Enzymes
0
Ribonucleosides
0
RNA
63231-63-0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
D231-D235Informations de copyright
© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research.
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