ArticleNucleic acids research2015
RNAssess--a web server for quality assessment of RNA 3D structures.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Structural Prediction of Coronavirus s2m Kissing Complexes and Extended Duplexes.ACS physical chemistry Au · 2025Article
- Advances and Mechanisms of RNA-Ligand Interaction Predictions.Life (Basel, Switzerland) · 2025Review
- 3dDNAscoreA: A scoring function for evaluation of DNA 3D structures.Biophysical journal · 2024Article
- Inconsistencies in the Classification of the Family Cydnidae (Hemiptera: Heteroptera: Pentatomoidea) Revealed by Molecular Apomorphies in the Secondary and Tertiary Structures of 18S rRNA Length-Variable Region L (LVR L).International journal of molecular sciences · 2024Article
- RNAloops: a database of RNA multiloops.Bioinformatics (Oxford, England) · 2022Article
- RNAspider: a webserver to analyze entanglements in RNA 3D structures.Nucleic acids research · 2022Article
- Evaluation of the stereochemical quality of predicted RNA 3D models in the RNA-Puzzles submissions.RNA (New York, N.Y.) · 2022Article
- IsRNA1:Journal of chemical theory and computation · 2021Article
- RNA-Puzzles toolkit: a computational resource of RNA 3D structure benchmark datasets, structure manipulation, and evaluation tools.Nucleic acids research · 2020Article
- Article
- Hierarchical Assembly of RNA Three-Dimensional Structures Based on Loop Templates.The journal of physical chemistry. B · 2018Article
- New algorithms to represent complex pseudoknotted RNA structures in dot-bracket notation.Bioinformatics (Oxford, England) · 2018Article
- LCS-TA to identify similar fragments in RNA 3D structures.BMC bioinformatics · 2017Article
- Opportunities and Challenges in RNA Structural Modeling and Design.Biophysical journal · 2017Article
- Structural alignment of protein descriptors - a combinatorial model.BMC bioinformatics · 2016Article
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Authors and funding
7 authors.
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Abstract
Nowadays, various methodologies can be applied to model RNA 3D structure. Thus, the plausible quality assessment of 3D models has a fundamental impact on the progress of structural bioinformatics. Here, we present RNAssess server, a novel tool dedicated to visual evaluation of RNA 3D models in the context of the known reference structure for a wide range of accuracy levels (from atomic to the whole molecule perspective). The proposed server is based on the concept of local neighborhood, defined as a set of atoms observed within a sphere localized around a central atom of a particular residue. A distinctive feature of our server is the ability to perform simultaneous visual analysis of the model-reference structure coherence. RNAssess supports the quality assessment through delivering both static and interactive visualizations that allows an easy identification of native-like models and/or chosen structural regions of the analyzed molecule. A combination of results provided by RNAssess allows us to rank analyzed models. RNAssess offers new route to a fast and efficient 3D model evaluation suitable for the RNA-Puzzles challenge. The proposed automated tool is implemented as a free and open to all users web server with an user-friendly interface and can be accessed at: http://rnassess.cs.put.poznan.pl/.
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