ProFunc   Prediction of protein function from 3D structure

The aim of the ProFunc server is to help identify the likely biochemical function of a protein from its three-dimensional structure. It uses a series of methods, including sequence searches, residue conservation, surface cleft analysis, and functional 3D templates, to identify both the protein's likely active site and possible homologues in the PDB.

From this page you can submit your own structure, analyse an existing PDB entry, or retrieve the results of a previously submitted run.

Choose option A, B or C:

Some of the methods take minutes or even hours to run. You will be notified by e-mail when the entire process is complete.

The files are usually stored for about 3 months before being deleted. However, they are stored on a partition that is not backed up; so, in principle, they could disappear at any time.

Notes

	Please try to limit the number of structures submitted to about 5 per hour to avoid overloading the server.
	If your structure contains any non-standard amino acids (eg selenomethionines, phosphotyrosines, etc) it is a good idea to rename them in your PDB file to their closest standard equivalents. This will increase the chances of ProFunc finding matches to both sequence and structure templates. (For selenomethionines identified by residue name MSE there is no need to make any changes).

ProFunc has been developed jointly with the Midwest Center for Structural Genomics (MCSG)