Dear All During researching Internet, I found justin and Anirban's tutorial about embedding protein in lipid membrane. It was useful and I appreciate them but I had one question. as I understood, I should make some changes to protein pdb file ( 1r2h for Ex) before using it in pdb2gmx command or the GROMACS can't keep on and will be died with a fatal error ( something like adding cope to the ends of the protein ). could somebody please tell me what should I do ? by the way I found out that Justin's tutorial do something with xleap amber on the pdb file. Please tell me how specifically I should revise my protein pdb file. best regards Ali khourshaei shargh (khourshaeisha...@mech.sharif.ir) Department of Mechanical Engineering Sharif University of Technology, Tehran, Iran �
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