Ashutosh Pal

5 Questions 3 Answers 0 Followers

Questions related from Ashutosh Pal

How can i change bond type in pdb file?

Hi i am doing work on a protein which has Cu ion in it but the bond it is making with protein are not matching the reference protein making bond with Cu ion so is there any possible to change the...

24 January 2024 6,033 1 View

Virtual Molecular Dynamics showing blank screen after opening .pdb and .gro file ?

it shows this and vmd shows blank screen Info) VMD for LINUXAMD64, version 1.9.4a57 (April 27, 2022) Info) http://www.ks.uiuc.edu/Research/vmd/ Info) Email questions and bug reports to...

31 August 2023 855 0 View

Molecular docking of small substrate have binded strongly but have lower docking energy ?

can we consider -5 kcal/mol binding energy is as good energy for small molecules like serotonin in molecular docking

24 August 2023 7,182 2 View

I have docked 2 ligand simultaneously and tried to get 2d interactions with ligplot+ but in ligplot+ it is showing only one ligand ?

My file contains 1 protein and 2 ligand that i have docked simultaneously but ligplot+ is showing only 1

22 May 2023 745 2 View

Error in Structure of protein when converted from pdb to gro

hi, i want to perform complete proteasome simulation as a part of my learning my proteasome contain chain A-Z and a and b chain all things were processed successfully by renaming the generated...

01 January 1970 2,985 2 View