Journal of Applied Crystallography

Volume 41, Part 3 (June 2008)

computer programs

J. Appl. Cryst. (2008). 41, 641-643 [ doi:10.1107/S0021889808006985 ]

CHAINSAW: a program for mutating pdb files used as templates in molecular replacement

N. Stein

Abstract: CHAINSAW is a model editing program for use in molecular replacement. Given a sequence alignment between template and target, it modifies the template structure on a residue-by-residue basis by pruning nonconserved residues while leaving conserved residues unchanged. Three degrees of pruning are possible. An internal alignment algorithm is used to cope with any residues that may be missing from the X-ray structure. CHAINSAW has been successfully used as a tool to assist in solving a number of protein structures.

Keywords: molecular replacement; model editing; protein structures.