Anjana Barange

6 Questions 10 Answers 0 Followers

Questions related from Anjana Barange

During npt equilibrium space is forming at the bialyer and water interface,why?

I am working on lipid bilayer and used water as a solvent. During npt space is formed at the water and bilayer interface. I had performed 4 steps of npt for 1ns, in the 3rd step there was the...

17 April 2024 5,425 0 View

How to solve the fatal error, during pdb2gmx for lipid?

I am working on the lipid, whose pdb file I have. While giving command gmx pdb2gmx for converting into gro format following error comes out, Fatal error: Residue 'KS7G' not found in residue...

01 November 2023 5,799 0 View

How to obtained the parameters of the new lipid for MD Simulation?

I have to study the molecular dynamics simulation of new lipid whose structure known( molecular formula) for that their parameters needed but I don't have, Could anyone help me?

05 October 2023 4,439 4 View

How to remove the water from a bilayer core, in GROMACS ?

I have lipid bilayer which is pack in packmol, after solvation in GROMACS, I don't want the water molecule in the lipid tail region for MD simulation. So can anyone help me to remove the water...

28 July 2023 1,293 12 View

How to calculate and plot the zeta potential across the box for lipid bilayer in GROMACS?

I am working on the MD simulation for the lipid bilayer composed of different lipids.

24 May 2023 7,874 0 View

How to download a gene sequence in PDB format?

I am working on MD simulations and require to use the PDB format for gene sequence.

23 May 2023 4,767 4 View