I have one transcription factor, so how do i have to do dock with DNA? how can i create PDB file of DNA? what is the procedure for simulation in gromacs? can you suggest anyone?
RNA structure prediction
01 February 2018 4,000 0 View
why only these denaturants used why not others can anybody give explanation for this?
01 February 2017 6,630 0 View
I have done molecular docking of one protein and ligand but i don't know how do i have to calculate free energy in between these two molecules? can you suggest anyone commands related to this?
11 December 2016 2,214 1 View
i am getting big crystals by increasing MPD from 40% to 60%, is the possibility of getting mpd crystals or they are protein crystals, those crystals are not well formed plz give suggestions.
11 December 2016 6,884 1 View
Please can any one suggest me preparation or how to dissolve gingkotoxin for my experiments?
09 October 2016 4,949 4 View
i have protein dimer sequences of chain A and B, how can i model these two sequences? i want to get as dimer. is there any software ? can you suggest?
09 October 2016 7,125 1 View
How do we have to incorporate metal in model structure of protein? is there any option in autodock? i want to do docking small ligand along with metal?
09 October 2016 9,376 1 View
i have modelled one protein by using modeller, after docking protein with suitable ligand, it is interacting with five amino acid residues, then i submitted that complex to 20 ns simulation...
08 September 2016 9,778 3 View
Basically how many nanoseconds we have to use for protein simulation? i used 20 ns for modeled structure, is it sufficient or shall i increase the time? can you suggest anyone?
08 September 2016 5,630 8 View
need to review articles on care giving in dementia and challenges faced
12 August 2024 6,424 1 View
I have face this problem anyone help me how to solve this issue ?which is below Fatal error: There are inconsistent shifts over periodic boundaries in a molecule type consisting of 78 atoms. The...
07 August 2024 2,598 1 View
Hi, I know that low molecular weight (MW) molecules generally tend to have higher mobility, while high molecular weight molecules tend to have lower mobility. However, in my experimental...
06 August 2024 1,495 2 View
kindly reply me. Thanking you in advance.
05 August 2024 7,727 4 View
I have protein-membrane simulations (PDB, PSF, DCD) and have noticed that water molecules near the protein are not visible in the simulations. How can I fix this issue? Is there a way to place the...
04 August 2024 1,200 2 View
What is the most suitable experimental setting to understand the consequences of a particular gene: (1) targeted degradation of the specific transcription factor (TF) of the gene, followed by...
04 August 2024 6,265 1 View
Is it possible to conduct a molecular dynamics simulation to see the effects of a specific carbohydrate on the structure of lipids (e.g., micelle structure)? I am a beginner in this field and plan...
03 August 2024 3,371 3 View
I am using a windows system, what software I should use for hydration shell analysis with molecular dynamics?
02 August 2024 3,143 4 View
Molecular docking software/ websites?
02 August 2024 8,704 7 View
On a personal note, even though technology has attracted a lot of interest and funding to combat climate change, it is becoming more and more clear that taking care of the "Human Dimension" is...
02 August 2024 6,773 12 View