Protein structure prediction in casp13 using awsem-suite
Recently several techniques have emerged that significantly enhance the quality of
predictions of protein tertiary structures. In this study, we describe the performance of …
predictions of protein tertiary structures. In this study, we describe the performance of …
AWSEM-Suite: a protein structure prediction server based on template-guided, coevolutionary-enhanced optimized folding landscapes
The accurate and reliable prediction of the 3D structures of proteins and their assemblies
remains difficult even though the number of solved structures soars and prediction …
remains difficult even though the number of solved structures soars and prediction …
Template-guided protein structure prediction and refinement using optimized folding landscape force fields
When good structural templates can be identified, template-based modeling is the most
reliable way to predict the tertiary structure of proteins. In this study, we combine template …
reliable way to predict the tertiary structure of proteins. In this study, we combine template …
Template‐free protein structure prediction and quality assessment with an all‐atom free‐energy model
Biophysical forcefields have contributed less than originally anticipated to recent progress in
protein structure prediction. Here, we have investigated the selectivity of a recently …
protein structure prediction. Here, we have investigated the selectivity of a recently …
Protein structure prediction: Making AWSEM AWSEM‐ER by adding evolutionary restraints
BJ Sirovetz, NP Schafer… - … : Structure, Function, and …, 2017 - Wiley Online Library
Protein sequences have evolved to fold into functional structures, resulting in families of
diverse protein sequences that all share the same overall fold. One can harness protein …
diverse protein sequences that all share the same overall fold. One can harness protein …
DeepFold: enhancing protein structure prediction through optimized loss functions, improved template features, and re-optimized energy function
Motivation Predicting protein structures with high accuracy is a critical challenge for the
broad community of life sciences and industry. Despite progress made by deep neural …
broad community of life sciences and industry. Despite progress made by deep neural …
Evaluation of the template‐based modeling in CASP12
A Kryshtafovych, B Monastyrskyy… - Proteins: Structure …, 2018 - Wiley Online Library
The article describes results of numerical evaluation of CASP12 models submitted on
targets for which structural templates could be identified and for which servers produced …
targets for which structural templates could be identified and for which servers produced …
Improved protein structure prediction using predicted interresidue orientations
The prediction of interresidue contacts and distances from coevolutionary data using deep
learning has considerably advanced protein structure prediction. Here, we build on these …
learning has considerably advanced protein structure prediction. Here, we build on these …
Data‐assisted protein structure modeling by global optimization in CASP12
In CASP12, 2 types of data‐assisted protein structure modeling were experimented. Either
SAXS experimental data or cross‐linking experimental data was provided for a selected …
SAXS experimental data or cross‐linking experimental data was provided for a selected …
TopModel: template-based protein structure prediction at low sequence identity using top-down consensus and deep neural networks
D Mulnaes, N Porta, R Clemens… - Journal of chemical …, 2020 - ACS Publications
Knowledge of protein structures is essential to understand proteins' functions, evolution,
dynamics, stabilities, and interactions and for data-driven protein-or drug design. Yet …
dynamics, stabilities, and interactions and for data-driven protein-or drug design. Yet …