RNA structure: advances and assessment of 3D structure prediction
Biological functions of RNA molecules are dependent upon sustained specific three-
dimensional (3D) structures of RNA, with or without the help of proteins. Understanding of …
dimensional (3D) structures of RNA, with or without the help of proteins. Understanding of …
[HTML][HTML] Homology modeling in the time of collective and artificial intelligence
Homology modeling is a method for building protein 3D structures using protein primary
sequence and utilizing prior knowledge gained from structural similarities with other …
sequence and utilizing prior knowledge gained from structural similarities with other …
High‐accuracy protein structure prediction in CASP14
The application of state‐of‐the‐art deep‐learning approaches to the protein modeling
problem has expanded the “high‐accuracy” category in CASP14 to encompass all targets …
problem has expanded the “high‐accuracy” category in CASP14 to encompass all targets …
QMEANDisCo—distance constraints applied on model quality estimation
G Studer, C Rempfer, AM Waterhouse… - …, 2020 - academic.oup.com
Motivation Methods that estimate the quality of a 3D protein structure model in absence of an
experimental reference structure are crucial to determine a model's utility and potential …
experimental reference structure are crucial to determine a model's utility and potential …
SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information
M Biasini, S Bienert, A Waterhouse… - Nucleic acids …, 2014 - academic.oup.com
Protein structure homology modelling has become a routine technique to generate 3D
models for proteins when experimental structures are not available. Fully automated servers …
models for proteins when experimental structures are not available. Fully automated servers …
lDDT: a local superposition-free score for comparing protein structures and models using distance difference tests
Motivation: The assessment of protein structure prediction techniques requires objective
criteria to measure the similarity between a computational model and the experimentally …
criteria to measure the similarity between a computational model and the experimentally …
Critical assessment of methods of protein structure prediction (CASP)—round x
This article is an introduction to the special issue of the journal PROTEINS, dedicated to the
tenth Critical Assessment of Structure Prediction (CASP) experiment to assess the state of …
tenth Critical Assessment of Structure Prediction (CASP) experiment to assess the state of …
Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge
This paper describes outcomes of the 2019 Cryo-EM Model Challenge. The goals were to
(1) assess the quality of models that can be produced from cryogenic electron microscopy …
(1) assess the quality of models that can be produced from cryogenic electron microscopy …
New prediction categories in CASP15
A Kryshtafovych, M Antczak… - Proteins: Structure …, 2023 - Wiley Online Library
Prediction categories in the Critical Assessment of Structure Prediction (CASP) experiments
change with the need to address specific problems in structure modeling. In CASP15, four …
change with the need to address specific problems in structure modeling. In CASP15, four …
GraphQA: protein model quality assessment using graph convolutional networks
Motivation Proteins are ubiquitous molecules whose function in biological processes is
determined by their 3D structure. Experimental identification of a protein's structure can be …
determined by their 3D structure. Experimental identification of a protein's structure can be …