Srdjan Masirevic

4 Questions 10 Answers 0 Followers

Questions related from Srdjan Masirevic

Visualizing protein-ligand interactioin with LIGPLOT or any other suitable software?

Hello, I have use DOCK to dock 10 ligands into the protein structure. I want to generate a pdb file that contains all 10 binding modes of the ligands together with the protein. So all together...

09 April 2020 6,990 3 View

What would be the best way to cluster NMR conformers based on RMSD value?

For instance, I have NMR protein structure with 20 conformers. My goal is to pick up three NMR conformers that are most different from each other in terms of RMSD value of all atoms. Does...

24 September 2019 149 11 View

How to dissolve specific hydrophobic inhibitor (potential drug) for crystallization purposes?

I am running experiment where I am trying to crystallize the complex of one protein and potential inhibitor, but I am having problem dissolving inhibitor in different organic solvents, therefore I...

24 May 2019 5,515 0 View

Analysis to compare docking score of multiple structure of the same protein?

Hello, I am docking same compounds to multiple structures of the same protein (but different crystal ligand) with DOCK. After doing some analysis I get difference in docking result between the...

01 January 1970 9,586 5 View