ArticleProtein science : a publication of the Protein Society2013
The dataset for protein-RNA binding affinity.
Article in Protein science : a publication of the Protein Society, 2013. 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.
- RNApedia: a database of structural protein-RNA interactions.Frontiers in bioinformatics · 2026Article
- CAP: Commutative algebra prediction of protein-nucleic acid binding affinities.Machine learning: science and technology · 2025Article
- Targeting RNA adenosine editing and modification enzymes for RNA therapeutics.Molecular therapy : the journal of the American Society of Gene Therapy · 2025Review
- Single-molecule identification of the target RNAs of different RNA binding proteins simultaneously in cells.Genes & development · 2022Article
- Probing TDP-43 condensation using an in silico designed aptamer.Nature communications · 2022Article
- Directed evolution of orthogonal RNA-RBP pairs through library-vs-library in vitro selection.Nucleic acids research · 2022Article
- Thermodynamic modeling reveals widespread multivalent binding by RNA-binding proteins.Bioinformatics (Oxford, England) · 2021Article
- Optimization of a bacterial three-hybrid assay through in vivo titration of an RNA-DNA adapter protein.RNA (New York, N.Y.) · 2021Article
- The World of Stable Ribonucleoproteins and Its Mapping With Grad-Seq and Related Approaches.Frontiers in molecular biosciences · 2021Review
- Article
- How to measure and evaluate binding affinities.eLife · 2020Article
- A structure-based model for the prediction of protein-RNA binding affinity.RNA (New York, N.Y.) · 2019Article
- Understanding mMolecular biotechnology · 2019Review
- Partner-specific prediction of RNA-binding residues in proteins: A critical assessment.Proteins · 2019Article
- Methods to study RNA-protein interactions.Nature methods · 2019Review
- PredPRBA: Prediction of Protein-RNA Binding Affinity Using Gradient Boosted Regression Trees.Frontiers in genetics · 2019Article
- rec-YnH enables simultaneous many-by-many detection of direct protein-protein and protein-RNA interactions.Nature communications · 2018Article
- Review
- Reading mTrends in cell biology · 2018Review
- The yeast transcription elongation factor Spt4/5 is a sequence-specific RNA binding protein.Protein science : a publication of the Protein Society · 2016Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We have developed a non-redundant protein-RNA binding benchmark dataset derived from the available protein-RNA structures in the Protein Database Bank. It consists of 73 complexes with measured binding affinity. The experimental conditions (pH and temperature) for binding affinity measurements are also listed in our dataset. This binding affinity dataset can be used to compare and develop protein-RNA scoring functions. The predicted binding free energy of the 73 complexes from three available scoring functions for protein-RNA docking has a low correlation with the binding Gibbs free energy calculated from Kd.
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Registered trials
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