Protein Structure and Function 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.

Currently, we have the following servers available.
RaptorX structure prediction - 3-state and 8-state secondary structure, solvent accessibility, disordered regions and tertiary structure prediction for a sequence
[Submit] [Retrieve Results by JobID] [Home] [Example] [Refs]


RaptorX-Binding - model-assisted protein binding site prediction for a sequence
[Submit] [Retrieve Results by JobID] [Example]


RaptorX Contact Prediction - protein residue contact prediction for a sequence
[Submit] [Retrieve Results by JobID] [Example] [Refs] [Software Download]


RaptorX Structure Alignment - protein pairwise and/or multiple structure alignment
[Submit] [Retrieve Results by JobID] [Example] [Refs] [Software Download]
Notes:
1. Registration is NOT required. Jobs can be submitted using a web browser or a command-line program curl. Each user, identified by an email address, can have up to 500 sequences pending prediction at any time point. Jobs are NOT first come, first-served. Instead, they are scheduled to ensure a fair share of the service. A user has the HIGHEST priority if not being served in the past 2 days. The less service a user receives in the past 2 days, the higher priority this user has. All anonymous jobs are scheduled as a single user.

2. A job result can be retrieved by the assigned JobID. The result URL will be sent to the email address provided in submission, which can also be used to retrieve all your jobs through My Jobs. If you lose the JobID or donot receive the email notification (even in your Spam folder), you may contact the RaptorX team by the form.

3. To see the result web page for interactive visualization, your browser shall support HTML5 and allow JavaScript, which is default on most modern browsers such as FireFox, Chrome, IE, Opera and Safari on several platforms (iPAD3, Windows XP and 7 and Mac). To speed up your web browsers, consult here.

4. To see the job results of the old RaptorX server, which stopped accepting submissions in June 2013, JavaApplet shall be enabled in your browser. Consult here for instructions.

News and updates

Error In Connecting To Server | 2014-10-02 21:40:08

Some users may see an error message in connecting to RaptorX. This is due to mis-configuration of our Firewall system. We will fix the problem as soon as possible.

Job Failure | 2014-07-07 10:14:29

One of our storage servers occasionally crashed in recent weeks. This may cause problems on some jobs. Please email us if you find out that your job hasn't been finished two days after submission or that your job has incorrect results.

Scale Up Raptorx | 2014-02-12 16:39:22

Recently RaptorX is overloaded most of time. We are working hard to scale it up so that each day 200-300 jobs can be finished.

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Server Status
76 jobs pending
89 jobs finished in the last 24 hours