This page is for information, documentation and simple bug-tracking for Super.
Super is a standalone program written in the C programming language as part of an honours research project by myself, James Collier. I have submitted a paper describing a web service powered by Super to the webserver issue of Nucleic Acids Research. You can perform searches of the PDB using this website here.
Super takes as input a query protein fragment, that is pre-processed into a space-efficient format, and a database to search (also pre-processed). It then searches through the database for fragments the same size as the query that are similar to the query within some threshold of RMSD. Super is special in this regard because it is able to perform this search of tens of millions of fragments in under 1 minute.
Super is primarily maintained here, by me. If you have any suggestions for how to improve Super I am very interested to hear them. If you have (or would like to) improve Super or it's documentation your help is greatly appreciated. You are very welcome to submit patches and bugs via email (I will post them here). If you don't have confidence in creating and formatting a patch I would be pleased to help and guide you along. If you find a bug you cannot fix, I will attempt to fix it for you as fast as possible. Unfortunately I don't have access to a publicly facing bug tracker so I hand-maintain a database of [Bugs]