Protein Structure Prediction
RaptorX is a protein structure prediction server developed by Xu group, excelling at predicting 3D structures for protein sequences without close homologs in the Protein Data Bank (PDB). Given an input sequence, RaptorX predicts its secondary and tertiary structures as well as solvent accessibility and disordered regions. RaptorX also assigns the following confidence scores to indicate the quality of a predicted 3D model: P-value for the relative global quality, GDT (global distance test) and uGDT (un-normalized GDT) for the absolute global quality, and RMSD for the absolute local quality of each residue in the model. RaptorX-Binding is a web server that predicts the binding sites of a protein sequence, based upon the predicted 3D model by RaptorX. More details can be found here: http://raptorx.uchicago.edu/about/
- Currently, we have the following three servers available.
- RaptorX - protein structure prediction
- [Submit] [Home]
- RaptorX new version in beta - see the box below
- [Submit] [Home]
- RaptorX-Binding - model-assisted protein binding site prediction
- [Submit] [Retrieve Results by JobID]
Results from all three severs are retrievable by user's email. RaptorX-Binding results can also be accessed using the provided JobID.
We recomend using Google Chrome or Firefox to view the prediction results due to incompatibility issues with the latest version of IE. Java needs to be enabled in your browser to see the results. For help with Java setup, consult http://java.com/en/download/help/enable_browser.xml
News and updates
We are going to upgrade the RaptorX server by the end of Feb 2013. This upgrade includes a much better alignment and modeling algorithm and also a better user interface.
A new version of the standalone threading program is available for download at http://raptorx.uchicago.edu/download/. This version is much more robust, efficient and also user-friendly than previous ones. If you need to predict structures for many sequences, you may install this standalone program locally. However, our web server does provide more functional modules and also visualization of the results.
Recently some users submitted very long sequences to RaptorX, so you may have to wait for a longer time than usual to receive result notifications. We are working on a new version of RaptorX, which shall have a much better throughput.