How to calculate Ligand-active site distance in a ligand-protein complex from MD simulation?

I have run a MD simulation of a ligand-protein complex in GROMACS using CHARMM forcefield. Reviewer has asked me to calculate Ligand-activesite distance and binding free energy of ligand with...

27 February 2021 4,703 1 View

How to indicate the degree of litter decomposed by microbes?

Any technique could detect the degree of litter decomposed by microbes? Or any indexes could do this job? I want to split the contribution of microbes during decomposition, so any suggestions...

23 February 2021 1,362 5 View

How to Implement Elastoplasticity in a PCL model in COMSOL Multiphysics?

I am using COMSOL Multiphysics 5.5. I am trying to simulate the tensile test of PCL scaffolds. However, regardless of the strain, I have the elastic region all the time which is not true when it...

23 February 2021 4,050 1 View

Would bisulfide sequencing result be affected if the tissue is fixed by perfusion?

I am looking into DNA methylation of mice as an aging marker along with other assays and recently I added brain IF to the list of assays. For this, I need to fix the brain by transcardial...

09 February 2021 9,012 3 View

Why E1g mode (Molybdenum disulfide) is undetectable in Raman spectroscopy?

I synthesized 1T/2H hybrid phase MoS2 on a graphite foil surface by hydrothermal method, and then analyzed it by Raman spectroscopy. As a result, three new peaks correspond to the 1T phase were...

04 February 2021 6,580 2 View

Which ethical metrics is expected from an academic who is the owner or the creator of the measuring instrument?

Which ethical metrics is expected from an academic who is the owner or the creator of the instrument? The measurement tool will be applied to adults as an online form and a snowball sample will...

01 February 2021 9,188 3 View

Can I use 500ng of DNA for restriction digestion?

The recommended amount of DNA for restriction digestion is 1ug in a 50ul rx I've got around 500-600ng of DNA in a total volume of 35ul. Would I get satisfactory results with this amount of DNA for...

31 January 2021 729 6 View

Difficulties purifying Outer Membrane Vesicles using a Sucrose Density Gradient: Unable to detect any protein after this process?

I'm currently trying to purify Outer Membrane Vesicles (OMVs) following their extraction from the bacteria I'm working with. After the initial extraction the concentration of protein seems good...

27 January 2021 6,852 3 View

Hi my name is syahida. may i know the accurate concentration of lpg gas?? is it 250 ppm consider as dangerous gas in household?

hi my name is syahida. may i know the accurate concentration of lpg gas?? is it 250 ppm consider as dangerous gas in household? can you guide me to do the project of lpg gas detector system...

23 January 2021 9,425 4 View

Where can I find these two papers?

14 January 2021 1,572 3 View

How to make fractions of chloroform extract of plant, using seperating funnel?

28 February 2021 8,466 2 View

What is the actual chemistry going on between iodate and ascorbic acid?

I am studying biochemistry at university, as part of the course we do several titration experiments. In our handouts, we were given the following half equations: IO3- + 6H+ + 4e- I+ +...

16 February 2021 8,731 1 View

Acid phenol:chloroform (25:24:1) for RNA extraction instead of (125:24:1)?

Hi everyone! I am about to extract RNA for RNA sequencing assays and my Invitrogen kit/protocol...

14 February 2021 1,755 3 View

Why do we wash azolectin with acetone?

I want to prepare liposomes made of azolectin (sometimes spelled as asolectin). I start with the azolectin powder, and many protocols say that I should wash it with acetone (dissolve, centrifuge,...

04 February 2021 2,738 3 View

Can anyone suggest an RNA extraction protocol from grape berries?

I am trying to extract RNA, from grape berries of a red variety, for qPCR (to study gene expression). I have tried nucleozol and a CTAB protocol (with b-mercaptoethanol+boric acid + cleaning with...

18 January 2021 8,857 2 View

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16 January 2021 8,334 5 View

Can chloroform be effectively stabilized with isopropanol? And why does ethanol stabilization usually only involve 1% by mass?

The oxidation of chloroform is dangerous because it results in phosgene formation under exposure to UV light. Along with the minimization of UV exposure, this reaction is usually prevented with 1%...

30 December 2020 3,356 3 View

How can i describe the different bands on tlc plate, plant extract?

On tlc plate i get some colorful band under uv 360nm, like pink, brown, indigo, sky blue and some others. How can i tell that this color indicates this compound? And in which extract hexane,...

21 December 2020 3,423 3 View

What glass vials do you use for small volumes (400ul-2000ul) that fit in the centrifuge?

I am planning some NMR experiments that require glass vials (due to chloroform). I am looking to find glass vials that would take 400-2000ul volumes, fit in the centrifuge and allow me to separate...

01 December 2020 3,259 2 View

Why does the command ''Topshim'' fails ?

Hello, I'am trying to run the 1H NMR spectrum of an ionic solution (Bromide Salt). the solution is too viscous so I had to randomly add a certain volume of deuterated chloroform, and then...

30 November 2020 8,569 1 View