CHAINSAW retains conserved amino acids but prunes nonconserved residues to the C-beta or C-gamma atom. PDBSET can renumber I think
Mark J van Raaij Laboratorio M-4 Dpto de Estructura de Macromoleculas Centro Nacional de Biotecnologia - CSIC c/Darwin 3, Campus Cantoblanco E-28049 Madrid, Spain tel. (+34) 91 585 4616 http://www.researcherid.com/rid/B-3678-2009 On 3 Feb 2011, at 14:11, Justin Hall wrote: > Dear Community, > > I am looking for a tool that can convert a potential MR search model to match > the residue number and a.a. type of my actual protein. Specifically, I have a > homolog structure, with slightly different start and stop residues, and > several non identical a.a.s relative to my protein. Can anyone direct me to a > tool that can renumber the a.a.s in my search model, and stub nonidentical > a.a.s to Ala? I recall there is a program in CCP4 that will renumber, leaving > the user to change a.a. type, but this problem seams like such a common one > that I am surprised there is not a utility that would perform both functions. > Cheers~ > > ~Justin
