ArticleNucleic acids research2005
Predicting the secondary structures and tertiary interactions of 211 group I introns in IE subgroup.
Article in Nucleic acids research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 36 citations in OpenAlex.
- Accurate, comprehensive database of group I introns and their homing endonucleases.Bioinformatics advances · 2025Article
- Discovery of new group I-D introns leads to creation of subtypes and link to an adaptive response of the mitochondrial genome in fungi.RNA biology · 2020Article
- Putative group I introns in the eukaryote nuclear internal transcribed spacers.Current genetics · 2020Article
- Group I introns are widespread in archaea.Nucleic acids research · 2018Article
- Polymorphism in Mitochondrial Group I Introns amongFrontiers in microbiology · 2018Article
- Accumulation of Stable Full-Length Circular Group I Intron RNAs during Heat-Shock.Molecules (Basel, Switzerland) · 2016Article
- Analysis of the Mitochondrial Genome in Hypomyces aurantius Reveals a Novel Twintron Complex in Fungi.International journal of molecular sciences · 2016Article
- Review
- "Cryptic" group-I introns in the nuclear SSU-rRNA gene of Verticillium dahliae.Current genetics · 2014Article
- Variations of SSU rDNA group I introns in different isolates of Cordyceps militaris and the loss of an intron during cross-mating.Journal of microbiology (Seoul, Korea) · 2014Article
- Multiple group I introns in the small-subunit rDNA of Botryosphaeria dothidea: implication for intraspecific genetic diversity.PloS one · 2013Article
- Cordyceps militaris (Hypocreales: Cordycipitaceae): transcriptional analysis and molecular characterization of cox1 and group I intron with putative LAGLIDADG endonuclease.World journal of microbiology & biotechnology · 2012Article
- Article
- Slow formation of a pseudoknot structure is rate limiting in the productive co-transcriptional folding of the self-splicing Candida intron.RNA (New York, N.Y.) · 2009Article
- A phage RNA-binding protein binds to a non-cognate structured RNA and stabilizes its core structure.Biochemical and biophysical research communications · 2009Article
- Toward predicting self-splicing and protein-facilitated splicing of group I introns.RNA (New York, N.Y.) · 2008Article
- Comprehensive features of natural and in vitro selected GNRA tetraloop-binding receptors.Nucleic acids research · 2008Article
- GISSD: Group I Intron Sequence and Structure Database.Nucleic acids research · 2008Article
- Variability of nuclear SSU-rDNA group introns within Septoria species: incongruence with host sequence phylogenies.Journal of molecular evolution · 2007Article
- Monovalent cations use multiple mechanisms to resolve ribozyme misfolding.RNA (New York, N.Y.) · 2006Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The large number of currently available group I intron sequences in the public databases provides opportunity for studying this large family of structurally complex catalytic RNA by large-scale comparative sequence analysis. In this study, the detailed secondary structures of 211 group I introns in the IE subgroup were manually predicted. The secondary structure-favored alignments showed that IE introns contain 14 conserved stems. The P13 stem formed by long-range base-pairing between P2.1 and P9.1 is conserved among IE introns. Sequence variations in the conserved core divide IE introns into three distinct minor subgroups, namely IE1, IE2 and IE3. Co-variation of the peripheral structural motifs with core sequences supports that the peripheral elements function in assisting the core structure folding. Interestingly, host-specific structural motifs were found in IE2 introns inserted at S516 position. Competitive base-pairing is found to be conserved at the junctions of all long-range paired regions, suggesting a possible mechanism of establishing long-range base-pairing during large RNA folding. These findings extend our knowledge of IE introns, indicating that comparative analysis can be a very good complement for deepening our understanding of RNA structure and function in the genomic era.
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