A Protein Secondary Structure Prediction Server

When pasting in a sequence do not add any comment or description lines, but spaces and carriage returns are allowed. You can also upload single sequences as files.

The upload option takes precedence if both inputs have been filled.

Batch submission of multiple sequences for individual secondary structure prediction could be done using a file in FASTA format (see link to an example above) and each sequence must be given a unique name (up to 25 characters with no spaces). Additional words or descriptions on the defline will be ignored. Batch jobs cannot be run interactively and results will be provided via e-mail only.

A limit of 200 sequences are allowed per batch submission. You may submit several batch jobs, but there is a hard limit of 4,000 sequence predictions in total per user per day. Please let us know if this limit is a problem for you and we'll look at temporarily changing it.

If your sequence has similarity to a known structure you should reconsider the utility of making a prediction.

The PDB is never searched with alignment or batch queries so this option is ignored for those input types.

A simple summary of the result will be emailed to you when the prediction is complete. Please make sure your email is valid and correct as the JPred server will not check the validity of it.

Very occasionally we may also use your e-mail address to inform you of changes to the service or major updates.

If no name is provided a randomly generated one will be used. Query names can only be made up of alphanumeric and '_' characters. Invalid characters will throw up an error.