Hi Sheng, you can do this interactively in "Editing Mode". Choose "Mouse > 3 Button Editing" from the menu or click the lower-right panel in the main window.
In Editing Mode, you can pick single atoms into named selections (pk1, pk2, ...). So for your peptide bond, pick the N and the C, type "fuse" and hit enter. To adjust the torsion angle, you can CTRL+Drag with the left mouse button. If you want to fuse non-interactively (using a script), you can select the endpoint atoms using PyMOL's powerful selection language: PyMOL> fuse last (obj01 and name C), first (obj02 and name N) Hope that helps. Cheers, Thomas Sheng wrote, On 11/19/12 02:55: > Dear,all > I'm a new user. > I wonder how to fuse two proteins by a peptide bond using pymol ? (from > 2 .pdb files into 1 file) > I found the following description in user manual.but I don't know how to > select a single atom. > I know it sounds silly, but I really don't know how to do this step. > I really appreciate your help! -- Thomas Holder PyMOL Developer Schrödinger Contractor ------------------------------------------------------------------------------ Monitor your physical, virtual and cloud infrastructure from a single web console. Get in-depth insight into apps, servers, databases, vmware, SAP, cloud infrastructure, etc. Download 30-day Free Trial. Pricing starts from $795 for 25 servers or applications! http://p.sf.net/sfu/zoho_dev2dev_nov _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
