Hi, This is because PyMOL does not read SSBOND records in PDB files. Actually, PyMOL determines if a bond is present based on atomic distances and CONECT records. http://www.pymolwiki.org/index.php/Connect_mode
PyMOL does not write SSBOND records when saving a PDB file. Best regards, Takanori Nakane On 2014-05-14 12:07, neshat haq wrote: > Hello every one, > I am not able save the pdb file, after I broke the disulfide bond. > what I did was > 1-loaded the pdb file > 2-selected 3-button editing mode > 3-selected the two atoms bonded by disulfide bond > 4-unbond pk1,pk2 > Now it shows the bond break, but when I was saving the file without > disulfide bond, it was not working.----------all the time file was > saved with disulfide bond. > How can it be solved......................anyone suggest something. > > -- > > Best regards > Neshatul Haque > PhD, Dpt of Biotechnology > university of hyderabad > > ------------------------------------------------------------------------------ > "Accelerate Dev Cycles with Automated Cross-Browser Testing - For FREE > Instantly run your Selenium tests across 300+ browser/OS combos. > Get unparalleled scalability from the best Selenium testing platform > available > Simple to use. Nothing to install. Get started now for free." > http://p.sf.net/sfu/SauceLabs > > _______________________________________________ > 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 ------------------------------------------------------------------------------ "Accelerate Dev Cycles with Automated Cross-Browser Testing - For FREE Instantly run your Selenium tests across 300+ browser/OS combos. Get unparalleled scalability from the best Selenium testing platform available Simple to use. Nothing to install. Get started now for free." http://p.sf.net/sfu/SauceLabs _______________________________________________ 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
