13 Questions 13 Answers 0 Followers
Questions related from Vinay Mohan Kandpal
I want to model a polymeric nanoparticle for some optical and thermal modeling simulation. For that I need to first model the nanoparticle, so for that what would be the most suitable software...
23 February 2025 3,325 1 View
or we can empty the cuvette with the previous sample and tap the cuvette on a paper towel and continue with replicate 2 and 3 and finally rinse when using sample 2. A curious question in case of...
10 April 2023 7,571 1 View
During molecular dynamics, I'm facing the error mentioned above. How can we fix it, I checked the lig.prm file to see if it is missing some angle parameters but it doesn't seem so, the file is...
03 November 2022 2,430 1 View
While docking SiO2 with a receptor protein in Autodock vina, the software threw an error which says "Si" is not a valid Autodock type. What is the possible reason and how to rectify this. How can...
18 October 2022 7,396 4 View
A protein which is selected using homology modelling, since there is no co-crystallized ligand attached to it. What is the procedure for the validation of docking procedure? Thanks in advance!...
25 August 2022 8,848 6 View
During Molecular Dynamic Simulation using NAMD-VMD in a Linux server, I encountered an error regarding Charm++ and a runtime CUDA version. I"m not able to deal with this with, so please suggest...
25 June 2022 6,137 0 View
After performing Molecular Docking between Protein-ligand complex in Autodock vina, how do we validate the results to be accepted? Is Molecular Dynamic Simulation help in doing so? Please provide...
25 April 2022 3,026 12 View
After adding hormones(Auxin- NAA, and Cytokinin-BAP) to the culture media which contains agar and other micro, macronutrients as well as vitamins, Sucrose and Agar. On autoclaving at 1210 C for...
07 April 2022 2,645 28 View
While working on molecular docking, in the process of the protein preparation when i added the polar hydrogen the system throws an error given below. An explanation of the error and a solution to...
05 March 2022 8,367 5 View
A DNA sample of 2000 base pairs was subjected to PCR under the given conditions Initiation; 950C for 5 minutes Denaturation: 950C for 45 seconds Annealing: 550C for 45 seconds Elongation: 720C for...
08 October 2021 3,231 5 View
In the PubChem database I could find a 2D structure of the compound (CID 24763) but wants a 3D structure for docking, moreover the compound is too long so is there any technique to cut it short...
03 September 2021 9,106 4 View
In molecular docking how can I find an unknown ligand attached to receptor and remove it using Pymol ? Please suggest a technique to identify/ remove any other macromolecule attached to it.
10 June 2021 1,386 5 View
As ethidium bromide is carcinogenic. Is there any alternative chemical for Ethidium bromide for the detection of DNA in Agarose gel which is non carcinogenic and safe to use ?
10 April 2021 7,292 10 View
