ProDA
Protein Design Assistant searches for peptide fragments satisfying selection criteria related to residue polarity, secondary structure, residue type, and its location in the database protein (buried or solvent accessible).
LoopFinder
ProDa searches for loops, regardless the structural environment.
LoopFinder, on the other hand, searches for loops that superpose well on 2, 3, or 4 residues before and after the insert. LoopFinder will scan the entire
PDB in minutes. It must run on your computer, so the
code and
databases are freely available.
Reference:
Please use the following citation when referencing the results: