title: RNAssess--a web server for quality assessment of RNA 3D structures.
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/.
authors.affiliation: Institute of Computing Science, Poznan University of Technology, Piotrowo 2, 60-965 Poznan, Poland Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704 Poznan, Poland piotr.lukasiak@cs.put.poznan.pl.
authors.forename: Piotr
authors.initials: P
authors.lastname: Lukasiak
authors.affiliation: Institute of Computing Science, Poznan University of Technology, Piotrowo 2, 60-965 Poznan, Poland.
authors.forename: Maciej
authors.initials: M
authors.lastname: Antczak
authors.affiliation: Institute of Computing Science, Poznan University of Technology, Piotrowo 2, 60-965 Poznan, Poland.
authors.forename: Tomasz
authors.initials: T
authors.lastname: Ratajczak
authors.affiliation: Institute of Computing Science, Poznan University of Technology, Piotrowo 2, 60-965 Poznan, Poland Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704 Poznan, Poland.
authors.forename: Marta
authors.initials: M
authors.lastname: Szachniuk
authors.affiliation: Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704 Poznan, Poland.
authors.forename: Mariusz
authors.initials: M
authors.lastname: Popenda
authors.affiliation: Institute of Computing Science, Poznan University of Technology, Piotrowo 2, 60-965 Poznan, Poland Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704 Poznan, Poland.
authors.forename: Ryszard W
authors.initials: RW
authors.lastname: Adamiak
authors.affiliation: Institute of Computing Science, Poznan University of Technology, Piotrowo 2, 60-965 Poznan, Poland Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704 Poznan, Poland.
authors.forename: Jacek
authors.initials: J
authors.lastname: Blazewicz
mesh_terms: D020407:Internet; D008958:Models, Molecular; D009690:Nucleic Acid Conformation; D012313:RNA / Q000737:chemistry*; D017423:Sequence Analysis, RNA; D012984:Software
chemical_list: D012313:RNA