SuperLooper

Description

These pages provide detailed information about the functionality and performance of the software SuperLooper.
Please select among the items below for the different aspects:

General Interactive Search Loop database Membrane planes Benchmarks References

SuperLooper is an application for filling in gaps in protein structures or replacing parts of protein structures by others, e.g. in the framework of comparative/homology modelling. The application is based on a comprehensive compilation of protein segments from the PDB. Moreover, an analogous collection of membrane protein loops is integrated.

When a gap in a protein structure is specified, a fast database search is performed. Output is a list of protein segments that fit into the gap with a tolerance of 0.75 Å. On top of this list, original loops from membrane proteins are suggested. SuperLooper provides several features allowing the user to select the appropriate segment and to finally create a new PDB-file containing the structure with the new built-in protein segment.