ArticleNucleic acids research2013
Identification of RNA targets for the nuclear multidomain cyclophilin atCyp59 and their effect on PPIase activity.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 42 citations in OpenAlex.
- Article
- Toward a systems view on RNA-binding proteins and associated RNAs in plants: Guilt by association.The Plant cell · 2023Article
- Genome-wide identification and stress response analysis of cyclophilin gene family in apple (Malus × domestica).BMC genomics · 2022Article
- The Arabidopsis cyclophilin CYP18-1 facilitates PRP18 dephosphorylation and the splicing of introns retained under heat stress.The Plant cell · 2022Article
- Cyclophilin acts as a ribosome biogenesis factor by chaperoning the ribosomal protein (PlRPS15) in filamentous fungi.Nucleic acids research · 2021Article
- Cyclophilins and Their Functions in Abiotic Stress and Plant-Microbe Interactions.Biomolecules · 2021Review
- Genome-wide characterization of peptidyl-prolyl cis-trans isomerases in Penicillium and their regulation by salt stress in a halotolerant P. oxalicum.Scientific reports · 2021Article
- Plant Cyclophilins: Multifaceted Proteins With Versatile Roles.Frontiers in plant science · 2020Review
- Genome-wide identification of cyclophilin genes in Gossypium hirsutum and functional characterization of a CYP with antifungal activity against Verticillium dahliae.BMC plant biology · 2019Article
- Genome-Wide Identification of Cyclophilin Gene Family in Cotton and Expression Analysis of the Fibre Development inInternational journal of molecular sciences · 2019Article
- Versatility of Cyclophilins in Plant Growth and Survival: A Case Study inBiomolecules · 2019Review
- The basic tilted helix bundle domain of the prolyl isomerase FKBP25 is a novel double-stranded RNA binding module.Nucleic acids research · 2017Article
- The Conserved RNA Binding Cyclophilin, Rct1, Regulates Small RNA Biogenesis and Splicing Independent of Heterochromatin Assembly.Cell reports · 2017Article
- Bioinformatic and expression analysis of the Brassica napus L. cyclophilins.Scientific reports · 2017Article
- In Planta Determination of the mRNA-Binding Proteome of Arabidopsis Etiolated Seedlings.The Plant cell · 2016Article
- A Conserved Nuclear Cyclophilin Is Required for Both RNA Polymerase II Elongation and Co-transcriptional Splicing in Caenorhabditis elegans.PLoS genetics · 2016Article
- Revealing protein-lncRNA interaction.Briefings in bioinformatics · 2016Review
- Prolyl isomerases in gene transcription.Biochimica et biophysica acta · 2015Review
- Cyclophilin40 isomerase activity is regulated by a temperature-dependent allosteric interaction with Hsp90.Bioscience reports · 2015Article
- Roles of Prolyl Isomerases in RNA-Mediated Gene Expression.Biomolecules · 2015Review
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
AtCyp59 is a multidomain cyclophilin containing a peptidyl-prolyl cis/trans isomerase (PPIase) domain and an evolutionarily highly conserved RRM domain. Deregulation of this class of cyclophilins has been shown to affect transcription and to influence phosphorylation of the C-terminal repeat domain of the largest subunit of the RNA polymerase II. We used a genomic SELEX method for identifying RNA targets of AtCyp59. Analysis of the selected RNAs revealed an RNA-binding motif (G[U/C]N[G/A]CC[A/G]) and we show that it is evolutionarily conserved. Binding to this motif was verified by gel shift assays in vitro and by RNA immunopreciptation assays of AtCyp59 in vivo. Most importantly, we show that binding also occurs on unprocessed transcripts in vivo and that binding of specific RNAs inhibits the PPIase activity of AtCyp59 in vitro. Surprisingly, genome-wide analysis showed that the RNA motif is present in about 70% of the annotated transcripts preferentially in exons. Taken together, the available data suggest that these cyclophilins might have an important function in transcription regulation.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.