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

Abstract

CHAINSAWis 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.CHAINSAWhas been successfully used as a tool to assist in solving a number of protein structures.