Overview WoLF PSORT is an extension of the PSORT II program for protein subcellular localization prediction, which is based on the PSORT principle. WoLF PSORT converts a protein's amino acid sequences into numerical localization features; based on sorting signals, amino acid composition and functiona...
This review divides protein domain prediction methods into two categories, namely sequence-based and structure-based. These methods are introduced in detail, and their advantages and limitations are compared. Furthermore, this review also provides a comprehensive overview of popular online protein domain...
a number of protein domain identification approaches have been developed, and a variety of protein domain databases have also been constructed. This review divides protein domain prediction methods into two categories, namely sequence-based and structure-based. These methods are introduced in detail, an...
Predicting protein structures from amino acid sequences used to be difficult and error prone. This changed in 2021 when AlphaFold2 reported near-experimental accuracy for most single-domain proteins. We look back on this breakthrough, discuss its effect on the field, and highlight AlphaFold3, a...
outperforms the current state-of-the-art flexibility prediction tool PROFbval for a binary classification problem and provides more precise flexibility prediction in three and five classes. MEDUSA is freely available as a web-server providing a clear visualization of the prediction results. Analysis ...
In addition to commonly used baselines in the automatic function prediction tasks, we also considered machine learning methods that had an open-source implementation that we could train from scratch on our dataset. BLAST—basic local alignment search tool ...
(e) Percentage of fully dark UniRef50 clusters with proteins annotated as a domain of unknown function (DUF) in each set a-e. Extended Data Fig. 2 Structural conservation and structure-based function prediction of TumE. Structural superposition of five randomly selected members of component 159 ...
proteinstructure-prediction3d-structureprotein-complexes UpdatedMar 2, 2025 Jupyter Notebook A collection of research papers for AI-based protein design awesomeprotein-structureartificial-intelligenceproteinawesome-list UpdatedMay 13, 2024 Ribbon diagrams of proteins in #golang. ...
each protein in one PPI has orthologs in the second PPI37. While a useful prediction tool, detecting an interolog in a new system requires established reference PPIs from other systems. This constraint by available data would result in a very limited number of predictions when analyzing interactio...
Recent breakthroughs in highly accurate protein structure prediction using deep neural networks have made considerable progress in solving the structure prediction component of the ‘protein folding problem’. However, predicting detailed mechanisms of h