Dear GROMACS experts, I am using pdb2gmx for a protein with 5 disulfind bond
https://copy.com/kPLlSianI4LtohNy The distance between each Cys SG are: 0.203, 0.204, 0.204, 0.205, 0.167. As a result, 10% margin of any value of the "reference length" in specbond.dat cannot cover all of the 5 Cys SG distance. I understand that a typical disulfide bond should be about 2.05 Å in length. However, if I still want to keep them, can I change the 10% margin to a higher value (e.g. 15%)? Thank you very much. Yours sincerely Cheng (Thank you for Justin's reply at https://mailman-1.sys.kth.se/pipermail/gromacs.org_gmx-users/2015-May/097699.html Would it be possible if I can simply reply to you for the thread instead of creating a new one?) -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-requ...@gromacs.org.
