Ria Biswas

7 Questions 10 Answers 0 Followers

Questions related from Ria Biswas

Problem with H-bond analysis in GROMACS ?

I have simulated a protein-protein complex in GROMACS. During Hydrogen bond analysis for individual residues using gmx hbond, I am getting results as H-bond average 1.012 for 2134 frames. What to...

12 December 2016 6,686 5 View

How to model a nanoparticle computationally ?

I want to study interaction studies of nanoparticle with my protein of interest. can anyone suggest me how to model a perfect nanoparticle for computational studies? what shall be the parameters...

07 July 2015 6,504 2 View

How can I dock multiple ligands to each pocket of each monomer of a homotetrameric protein?

I am trying to dock ligand to a homotetrameric protein which is functional only in its tetrameric form. My problem is I have to dock four ligands in the four catalytic pockets of each monomer....

02 February 2015 2,704 5 View

Protocol for inner and outer membrane isolation from Bacillus subtilis

I need to isolate the inner and outer membrane proteins of Bacillus subtilis. Can someone suggest a protocol to for the same. Please suggest some papers too.

07 July 2014 6,988 1 View

What are the best methods for removing contaminating gDNA from my RNA preparations which I will be using for RT-PCR?

See above.

06 June 2014 4,174 20 View

Does anyone know a command for separating pdb files after a simulation run in gromacs?

Can anyone tell me the command for separating pdb files after a simulation is complete in gromacs?

05 May 2014 5,944 3 View

I am unable to see any band for my PCR?

The annealing temperature of the primer is very low (35 degrees centigrade). What should be the measures? Should I redesign my primers?

12 December 2013 4,253 11 View