I have made an entry under free software at molvisindex.org for Annemarie Honegger's PDB Excel macros, so in future it will be easy to find them. Here are a couple of more options in addition to the excellent suggestions already posted. 1. DeepView: Edit, Rename Current Layer can (a) give a new chain name to the selected residues, and/or (b) renumber the selected residues with a specified starting number. Thus one could renumber one of the two 1-62 sets as 101-162, or give them a different chain name (causing Chime to fail to display the covalent bond between "chains"). The layer can then be saved, and optionally the lines in the saved PDB file inserted by DeepView can easily be deleted with a text editor. They are bulky but harmless for non-DeepView software, and useful within DeepView (e.g. they maintain the selection at the time the layer was saved). The saved files work fine in Chime. For Protein Explorer, such a modified file can be put on any server, and displayed in PE either by pasting the URL in the long slot at the FrontDoor (click on the link "molecule's URL" below the short slot for PDB codes), or by creating a link to the modified file (click on the link "Create hyperlinks that prespecify molecules" also below the PDB ID slot). PE's Atlas of Macromolecules has many examples of links to such modified PDB files, e.g. under toxins, the heptamer model, http://molvis.sdsc.edu/protexpl/pe.htm?id=http%3A//molvis.sdsc.edu/pdb/1acchept.pdb 2. RasMol's "renumber" command renumbers residues in all chains in the currently loaded PDB file, and optionally accepts a starting value (which can be negative). But CAREFUL! RasMol (2.6 only?) unconditionally changes all coordinates by providing its own arbitrary origin. Therefore one CANNOT separate multiple chains into different PDB files, renumber and save each, then concatenate them. If you did, the chains will no longer have the proper distances from each other (may even occupy the same space). Therefore DeepView is better for renumbering. For a summary about this behavior, see http://www.umass.edu/microbio/rasmol/pdbtools.htm /* - - - - - - - - - - - - - - - - - - - - - - - - - - - Protein Explorer - 3D Visualization: http://proteinexplorer.org Workshops: http://www.umass.edu/molvis/workshop Biochem Structure Tutorials http://MolviZ.org World Index of Molecular Visualization Resources: http://molvisindex.org ConSurf - Find Conserved Patches in Proteins: http://consurf.tau.ac.il Atlas of Macromolecules: http://molvis.sdsc.edu/atlas/atlas.htm PDB Lite Macromolecule Finder: http://pdblite.org Molecular Visualization EMail List (molvis-list): http://bioinformatics.org/mailman/listinfo/molvis-list Eric Martz, Professor Emeritus, Dept Microbiology U Mass, Amherst MA US 413-545-2325/FAX 413-545-2532 http://www.umass.edu/molvis/martz - - - - - - - - - - - - - - - - - - - - - - - - - - - */