ArticlePloS one2013
Improved computational target site prediction for pentatricopeptide repeat RNA editing factors.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 103 papers.
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103 citing papers in PubMed.
- A rapid and efficient in planta assay for assessment of RNA editing factor performance.The Plant journal : for cell and molecular biology · 2026Article
- Expanding the palette of cis-elements to tune the expression of chloroplast transgenes in tobacco.The Plant journal : for cell and molecular biology · 2026Article
- Natural Variation of a PPR Coding Gene SST1 Confers Salt Tolerance During Soybean Domestication.Plant biotechnology journal · 2026Article
- A Generalized AI View of Tricopeptide Repeats: What's in a Name.International journal of molecular sciences · 2025Review
- Detection of Plant RNA-Protein Interactions Using GFP-tag for Immunoprecipitation.Bio-protocol · 2025Article
- Deciphering the role of accessory proteins in Arabidopsis chloroplast editosomes via interaction with a synthetic PPR-PLS factor in E. coli.Nucleic acids research · 2025Article
- De novo RNA base editing in plant organelles with engineered synthetic P-type PPR editing factors.Nucleic acids research · 2025Article
- Pentatricopeptide repeat proteins in plants: Cellular functions, action mechanisms, and potential applications.Plant communications · 2025Review
- Translational activation by a synthetic PPR protein elucidates control of psbA translation in Arabidopsis chloroplasts.The Plant cell · 2024Article
- Identification and variation of a new restorer of fertility gene that induces cleavage in orf138 mRNA of Ogura male sterility in radish.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Article
- Comparative mitochondrial genomics of Terniopsis yongtaiensis in Malpighiales: structural, sequential, and phylogenetic perspectives.BMC genomics · 2024Article
- Genome Editing of Plant Mitochondrial and Chloroplast Genomes.Plant & cell physiology · 2024Review
- Applications of Synthetic Pentatricopeptide Repeat Proteins.Plant & cell physiology · 2024Review
- The dicot homolog of maize PPR103 carries a C-terminal DYW domain and may have a role in C-to-U editing of some chloroplast RNA transcripts.Plant molecular biology · 2024Article
- Conservation of the moss RNA editing factor PPR78 despite the loss of its known cytidine-to-uridine editing sites is explained by a hidden extra target.The Plant cell · 2024Article
- A Comprehensive Analysis of Auxin Response Factor Gene Family inInternational journal of molecular sciences · 2024Article
- Comparative Genomic Analysis of Asian Cultivated Rice and Its Wild Progenitor (International journal of molecular sciences · 2023Article
- Beyond a PPR-RNA recognition code: Many aspects matter for the multi-targeting properties of RNA editing factor PPR56.PLoS genetics · 2023Article
- Structural insight into the activation of an Arabidopsis organellar C-to-U RNA editing enzyme by active site complementation.The Plant cell · 2023Article
- Emergence of Novel RNA-Editing Sites by Changes in the Binding Affinity of a Conserved PPR Protein.Molecular biology and evolution · 2022Article
43 more citing papers are in PubMed but not listed here.
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4 authors.
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Abstract
Pentatricopeptide repeat (PPR) proteins with an E domain have been identified as specific factors for C to U RNA editing in plant organelles. These PPR proteins bind to a unique sequence motif 5' of their target editing sites. Recently, involvement of a combinatorial amino acid code in the P (normal length) and S type (short) PPR domains in sequence specific RNA binding was reported. PPR proteins involved in RNA editing, however, contain not only P and S motifs but also their long variants L (long) and L2 (long2) and the S2 (short2) motifs. We now find that inclusion of these motifs improves the prediction of RNA editing target sites. Previously overlooked RNA editing target sites are suggested from the PPR motif structures of known E-class PPR proteins and are experimentally verified. RNA editing target sites are assigned for the novel PPR protein MEF32 (mitochondrial editing factor 32) and are confirmed in the cDNA.
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