Muhd Hanis Md Idris

11 Questions 6 Answers 0 Followers

Questions related from Muhd Hanis Md Idris

If the predicted model of homology protein is disobey Ramachandran plot, what is the next step to improve the model?

I had construct the protein model using three software, I-TASSER, Raptor-X and Swissmodel. But, none of them are fulfilled Ramachandran plot criteria. So, how to improve the model for the next...

17 June 2022 638 4 View

Is it necessary to run molecular dynamic simulation after modelling of unknown protein structure?

I had predicted 3D structure of protein using I-TASSER as there are no template that satisfied match with the protein sequence. Then I checked the Ramachandran plot to determine the reliability of...

24 July 2019 6,905 2 View

How to choose suitable solvent model for molecular dynamics?

I had ran molecular dynamic simulation on apo protein using TIP3P, TIP4P, TIP4PEW and SPC for 25 ns to establish the most suitable solvent model for specific protein. However, none of them gave...

25 May 2018 10,076 3 View

What is the number of cells and which culture plate that need to used for growth curve assay?

How much the cells that I need to use for developing growth curve of the cells? What is the size of cell culture plate that I need to use? Is there any standard guideline to follow? At the moment,...

28 July 2016 2,635 4 View

What the software can be use to predict the side effect of the compound?

I'm looking the free software as well as commercial software that can use to predict the side effects of the lead compound like liver toxicity and so on. Thanks.

28 April 2016 7,758 3 View

Which software is suitable to do PCA analysis?

I want to determine the diversity of chemical compounds that I have collected by using principal component analysis (PCA). Which PCA software is suitable for me to use?

14 November 2015 1,171 40 View

What assay should I use to determine the specificity of the drug (PDE4B inihibitors) towards target?

There are many types of phosphodiesterase (PDE) as well as subfamilies of each type. What assay that we can do to identify the specific target of the drug using in vitro and in vivo study?

23 September 2015 4,150 3 View

Do I need to do ligand preparation and generate conformation before converting into ldb format?

I want to screen the compounds in Ligand Scout. So I need to convert the compound to lbd format as Ligand Scout only accept that format. Is it I need to do ligand preparation and generate...

10 August 2015 6,334 3 View

How to remove the yellow colour in tissue processing if tissue is fixed in Bouin's solution?

I use Bouin's solution to fixed testis of rat. How long should I fixed the tissue using Bouin's solution? And then how can we process the tissue that is fixed using Bouin's solution? Is it...

15 June 2015 1,935 7 View

Is it necessary to measure the cytokines level as well as their protein expression at the same time?

May I know the different if we measure the cytokine level using ELISA and protein expression (Western blot and RT-PCR)? Some of the journal measure both.

06 February 2015 9,479 3 View

What is the best animal model for rheumatoid arthritis?

What the different between all the model? Preferably rat/mouse.

30 October 2014 8,692 8 View