Hi Wei, Phosphorylating a serine with the builder works fine for me.
1) click "Builder" button -> opens panel and should automatically switch to "3-Button Editing" mouse mode 2) click on the serine's OG atom -> should create "pk1" selection 3) click "P=O3" button on the Builder panel To change the orientation of the phosphate group, make sure you're in "3-Button Editing" mouse mode, then 1) double click the CB-OG bond with the *right* mouse button -> shows dihedral indicator 2) CTRL-drag any of the phosphate group atoms with the left mouse button Cheers, Thomas > On Jul 31, 2018, at 6:42 PM, Wei Song <weisong...@gmail.com> wrote: > > Hi all, > > I have a peptide structure and would like to phosphorylate one of the serine > residues to test its binding capacity to a ligand. I tried the Build function > with a PyMol 2.0, but only a phosphorous can be added to the serine. Does > anyone have experiences of creating a phosphorylated residue with PyMol or > other tools? > Any suggestions would be appreciated. > > Thanks, > Wei -- Thomas Holder PyMOL Principal Developer Schrödinger, Inc. ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot _______________________________________________ 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
