The RNA-Puzzles assessments of RNA-only targets in CASP16

2025 · doi:10.22541/au.174717729.93103064/v1
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Abstract

RNA-Puzzles was launched in 2011 as a collaborative effort dedicated to advancing and improving RNA 3D structure prediction. The automatic evaluation protocols for comparisons between prediction and experiment developed within RNA-Puzzles are applied to the 2024 CASP16 competition. The scores evaluate stereochemical parameters, Watson-Crick pairs, non-Watson-Crick pairs and base stacking in addition to standard global parameters such as RMSD, TM-score, GDT, or lDDT. Several targets were particularly difficult owing to their size or multimerization. Although predictions with good metrics on secondary structure can yield acceptable global folds, these are not sufficient to guarantee the chemical precision, or the correct identification of residues involved in the non-Watson-Crick interactions that are critical for the three-dimensional architecture and the biological function of the RNAs.
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Abstract

RNA-Puzzles was launched in 2011 as a collaborative effort dedicated to advancing and improving RNA 3D structure prediction. The automatic evaluation protocols for comparisons between prediction and experiment developed within RNA-Puzzles are applied to the 2024 CASP16 competition. The scores evaluate stereochemical parameters, Watson-Crick pairs, non-Watson-Crick pairs and base stacking in addition to standard global parameters such as RMSD, TM-score, GDT, or lDDT. Several targets were particularly difficult owing to their size or multimerization. Although predictions with good metrics on secondary structure can yield acceptable global folds, these are not sufficient to guarantee the chemical precision, or the correct identification of residues involved in the non-Watson-Crick interactions that are critical for the three-dimensional architecture and the biological function of the RNAs. Information & Authors Information Version history Peer review timeline Published Proteins: Structure, Function, and Bioinformatics Version of Record3 Oct 2025Published Copyright This work is licensed under a Non Exclusive No Reuse License. Collection

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Authors Metrics & Citations Metrics Article Usage 562views 321downloads Citations Download citation Eric Westhof, Hao Sun, Fan Bu, et al. The RNA-Puzzles assessments of RNA-only targets in CASP16. Authorea. 13 May 2025. DOI: https://doi.org/10.22541/au.174717729.93103064/v1 DOI: https://doi.org/10.22541/au.174717729.93103064/v1 If you have the appropriate software installed, you can download article citation data to the citation manager of your choice. Simply select your manager software from the list below and click Download. For more information or tips please see 'Downloading to a citation manager' in the Help menu. Cited by - Functional Relevance of CASP16 Nucleic Acid Predictions as Evaluated by Structure Providers , Proteins: Structure, Function, and Bioinformatics, 94, 1, (51-78), (2025).https://doi.org/10.1002/prot.70043 Loading...

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