ArticleProceedings of the National Academy of Sciences of the United States of America2012
Patterns and plasticity in RNA-protein interactions enable recruitment of multiple proteins through a single site.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
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Who cites it
39 citing papers in PubMed, 48 citations in OpenAlex.
- Crystal structures of Caenorhabditis elegans PUF-3 depict plasticity of RNA recognition that enables germline gene regulation.Nucleic acids research · 2026Article
- Article
- The PUF RNA-binding protein, FBF-2, maintains stem cells without binding to RNA.RNA (New York, N.Y.) · 2025Article
- The PUF RNA-binding protein, FBF-2, maintains stem cells without binding to RNA.bioRxiv : the preprint server for biology · 2024Article
- A comprehensive thermodynamic model for RNA binding by the Saccharomyces cerevisiae Pumilio protein PUF4.Nature communications · 2022Article
- Flexible TALEs for an expanded use in gene activation, virulence and scaffold engineering.Nucleic acids research · 2022Article
- Bipartite interaction sites differentially modulate RNA-binding affinity of a protein complex essential for germline stem cell self-renewal.Nucleic acids research · 2022Article
- Effects of sequence motifs in the yeast 3' untranslated region determined from massively parallel assays of random sequences.Genome biology · 2021Article
- Roles of the Pumilio domain protein PUF3 inParasitology · 2020Article
- Nop9 recognizes structured and single-stranded RNA elements of preribosomal RNA.RNA (New York, N.Y.) · 2020Article
- Article
- Posttranscriptional Regulation ofInternational journal of molecular sciences · 2019Article
- A Quantitative and Predictive Model for RNA Binding by Human Pumilio Proteins.Molecular cell · 2019Article
- Article
- Expanding RNA binding specificity and affinity of engineered PUF domains.Nucleic acids research · 2018Article
- RNA-binding specificity landscapes of designer pentatricopeptide repeat proteins elucidate principles of PPR-RNA interactions.Nucleic acids research · 2018Article
- The PUF Protein Family: Overview on PUF RNA Targets, Biological Functions, and Post Transcriptional Regulation.International journal of molecular sciences · 2018Review
- Article
- Structural basis for the specific recognition of 18S rRNA by APUM23.Nucleic acids research · 2017Article
- Architecture and dynamics of overlapped RNA regulatory networks.RNA (New York, N.Y.) · 2017Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
Abstract
mRNA control hinges on the specificity and affinity of proteins for their RNA binding sites. Regulatory proteins must bind their own sites and reject even closely related noncognate sites. In the PUF [Pumilio and fem-3 binding factor (FBF)] family of RNA binding proteins, individual proteins discriminate differences in the length and sequence of binding sites, allowing each PUF to bind a distinct battery of mRNAs. Here, we show that despite these differences, the pattern of RNA interactions is conserved among PUF proteins: the two ends of the PUF protein make critical contacts with the two ends of the RNA sites. Despite this conserved "two-handed" pattern of recognition, the RNA sequence is flexible. Among the binding sites of yeast Puf4p, RNA sequence dictates the pattern in which RNA bases are flipped away from the binding surface of the protein. Small differences in RNA sequence allow new modes of control, recruiting Puf5p in addition to Puf4p to a single site. This embedded information adds a new layer of biological meaning to the connections between RNA targets and PUF proteins.
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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.