Yogesh Sharma

6 Questions 16 Answers 0 Followers

Questions related from Yogesh Sharma

How can we turn a short peptide having affinity for some compound into whole cell biosensor?

Greetings, I have a short stretch of 20 aa with strong binding affinity for a compound. I am trying to de some whole cell flourescence or visible biosensing technique based on this peptide. Can...

27 November 2020 8,445 3 View

Should one put position restraint on protein backbone during simulations?

Hi, I am studying a transporter protein. X ray crystallographic structure is not known yet. So, i am using homolgy modelled structures for my studies. I am curious if i should put position...

31 July 2020 3,302 1 View

Selecting and rewriting protein trajectory for specific atom groups ?

hey, i am here with two basic questions: I want to perform some analysis on monomers of pentameric protein. There is HSD residue in my protein but when i am performing hydrophobicity related...

22 July 2020 10,005 1 View

Generating protein polymer from monomer?

helllo readers I am trying to generate a protein tetramer from modelled monomer. i tried vmd matrix conversion but most of the available pdbs for protein are considering tetramer as a single...

09 June 2020 8,403 8 View

What are the best tools for aquaporin structure predictions?

Hi everyone I am trying to predict 3D structures of aquaporins for further simulation studies. I have used swissmodel itasser etc. for structure prediction. Although basic characteristic...

11 February 2020 1,909 18 View

Dangling bonds in protein terminals?

I am performing protein ligand simulations in Gromacs. In md simulations how can one fix these dangling movements of residues near protein terminals? I think this will interfere in my RMSD or...

14 January 2020 4,119 3 View