Manoj Patel

4 Questions 5 Answers 0 Followers

Questions related from Manoj Patel

How can I apply soft potential to remove overlapping atoms in GROMACS?

Hi I have a martini system of 1642 atoms. Most of them are overlapping. I tried running energy minimization with all sorts of parameter manipulation but system doesn't resolve and crashes. I am...

25 January 2023 9,512 1 View

Why can't see I "open in local terminal" option in llinux distros other than ubuntu?

I tried ubuntu and many other Linux distros. In ubuntu when I open the file browser of a remote machine and when I am in any remote directory, the mouse right-click in file explorer empty space...

02 September 2022 1,271 2 View

How to build topology file of unknown residue/molecule?

Hi I need to build psf of m7G capped rna structure (pdb id-6IS0). The m7G is unrecognizable by topology file. Can anyone please help me in building psf of this whole structure. I can't find...

17 July 2022 5,793 2 View

How to fix clashes/overlaps of atoms in pdb file?

Hi I downloaded pdb file from rcsb and fixed missing residues by using Modeller. Now I have full dequence of pdb but few of the residue atoms are clashing with other backbone residues. How can I...

01 January 1970 8,677 7 View