Can someone suggest a way to prepare slides to observe under confocal microscope for observing fluorescent tagged proteins??

I am growing the cells on coverslips and transfecting the fluorescent tagged protein directly on them. Then i want to observe these cells under confocal microscope. Currently i am just using...

01 March 2021 6,142 3 View

What are the different subclasses in intermediate seeds?

I am currently working on an endemic tree species, that produces mature seeds (moisture content 51%) which shows both vivipary (30% of total harvested seeds from a tree) and dormancy (~40%) of...

20 January 2021 2,670 3 View

Do you can put again my publications online?

Dear All, Please I has accidentaly removed 22 publications from RG my profile in the mail that you send me today, please put again those publicatios in my profile. Best regards,

13 December 2020 9,981 4 View

Adhesion energy (MOF-water) >> cohesion energy (MOFs) results higher uptake- how can I prove it thermodynamically?

In a surface energy analysis, we have found a very interesting result- the cohesive energy of aluminum fumarate is lower than the adhesive energy of aluminum fumarate-water pair. Also, the uptake...

05 November 2020 4,292 2 View

How can one automatically extract drainage basin values from a DEM following Strahler stream ordering approach?

Analysing hydrologically corrected DEM avails an opportunity to calculate morphometric indices such as drainage basin density(DD) (which takes manual approach). Can not DD and others be extracted...

07 October 2020 3,893 3 View

How to hydroxylate the surface of bismuth telluride nanoparticles?

Would it be possible to add -OH functional groups to Bi2Te3 nanoparticles?

07 October 2020 6,560 3 View

What is the chemical stability of bismuth telluride either in bulk or nanoparticle form (e.g., nanowires, platelets, etc)?

I am interested in post-synthethic methods of this material, and would like to know the chemical stability of Bi3Te2 (particularly nanotubes) in water, acid o alkaline media. Any literature...

03 October 2020 2,743 3 View

Does reducing the brain neuronal network as an inevitable aging event serve to consolidate memory tracking?

07 September 2020 6,188 2 View

What are all the criteria for the occurrence of Lunar Eclipse?

I have read the maximum limit of Lunar Eclipse is 12.2 degrees of arc (i.e. the difference in the longitude between Moon and any one node of the Moon). However on on June 5th 2020, a partial Lunar...

27 August 2020 986 5 View

Are there differences between Rietveld refinement process for powder sample and thin films sample?

In general thin films exhibit a preferred direction, and other features like contribution of substrate in XRD pattern....ext. So I would like to ask : if we use the Rietveld refinement with XRD...

23 July 2020 9,725 3 View

Is there any difference between "SEP" as a non standard residue and phohophorylated serine?

I am trying to run a molecular dynamics simulation for a ligand that contains a "SEP" residue. also, I am preparing my files using Charmm-GUI using charmm36 ff, but it says that it will rename my...

31 January 2021 6,321 1 View

Does AMBER or CHARMM force field parameters have coarsed grained side chain parameters?

I need to coarse grain the side chain with a single atom. However, what force field parameters do I have to use. Does AMBER or CHARMM have any parameters and partial charges for coarse-grained...

31 January 2021 7,091 3 View

The lipid bilayer broken down and form micelle within 1ns MD simulation. How to simulate lipid bilayer without breaking bilayer?

To simulate the lipid bilayer (10-10, 25-25 so on) from CHARMM-GUI membrane builder, we used to simulate it at various force field (AMBER14, AMBER03, AMBER14IPQ, AMBER15FB, NOVA, YAMBER) at water...

26 January 2021 7,816 2 View

AMBER tleap solvatebox always undervalues the density, why?

I've been searching for an answer to this question for years, and I'm shocked I haven't found any discussion on any forums. Here is an example to provide more details: I am preparing a 450...

20 January 2021 7,561 2 View

How to increase GPU usage during MD simulation?

The GPU usage percentage of my Nvidia Quadro K3100M does not exceed 10% during running MD simulation of protein of 252 residue length using VMD/NAMD software. Any one can provide advice on how...

08 January 2021 7,594 3 View

How to solve "Too many atoms in a patch" error?

Hi all, I was trying to run a simulation in NAMD but encountered the following error: FATAL ERROR: CudaTileListKernel::buildTileLists, maximum shared memory allocation exceeded. Too many atoms in...

01 January 2021 6,491 3 View

Can i use MM-PBSA to calculate the binding energy of a glycan ligand? ad how?

I have a protein-ligand (glycan) complex and want to do an MM-PBSA analysis using AMBERTOOLS after doing MDS (NAMD). What are the files necessary I should prepare for glycan? Note: I used...

30 December 2020 2,658 2 View

What does the potential energy in NAMD log file mean?

i have run a simulation for a protein (minimization, equilibration and production). in minimization step, the potential energy value in the log file is minimized at temperature = 0 K. in the...

23 December 2020 8,756 3 View

Is there anyone who can help me parameterizing theligand molecule with AMOEBA polarizing force field for using it in AMBER?

I am able to generate the parameter topology files for protein and water box using TINKER but am not able to generate these for my ligand as it is finding no atom types and atom class in TINKER....

17 December 2020 4,309 1 View

Any Molecular Dynamics Tutorial for Membrane-Bound Proteins in Amber?

Hi everyone I'm currently working with a membrane transporter protein to which I need to simulate molecular dynamics (MD). For this, I have inserted my protein in a membrane with CHARMM-GUI and...

16 December 2020 407 1 View