Problem with H-bond analysis in GROMACS ?

I have simulated a protein-protein complex in GROMACS. During Hydrogen bond analysis for individual residues using gmx hbond, I am getting results as H-bond average 1.012 for 2134 frames. What to...

11 December 2016 6,634 5 View

How can I dock multiple ligands to each pocket of each monomer of a homotetrameric protein?

I am trying to dock ligand to a homotetrameric protein which is functional only in its tetrameric form. My problem is I have to dock four ligands in the four catalytic pockets of each monomer....

01 February 2015 2,654 5 View

Protocol for inner and outer membrane isolation from Bacillus subtilis

06 July 2014 6,936 1 View

What are the best methods for removing contaminating gDNA from my RNA preparations which I will be using for RT-PCR?

See above.

05 June 2014 4,118 20 View

Does anyone know a command for separating pdb files after a simulation run in gromacs?

Can anyone tell me the command for separating pdb files after a simulation is complete in gromacs?

04 May 2014 5,884 3 View

I am unable to see any band for my PCR?

The annealing temperature of the primer is very low (35 degrees centigrade). What should be the measures? Should I redesign my primers?

11 December 2013 4,207 11 View

Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence?

I am on the lookout for the Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence. Does anyone know where I can find it? Thank you in advance

03 March 2021 3,568 1 View

I need to image mesoporous silica nanoparticles that are in ~100 nm size and do high resolution TEM to look at mesopores. what grids should I use?

Need to image mesoporous silica nanoparticles using the TEM. Also, need high resolution TEM images to see the mesoporous structure. Kindly suggest what kind of grids to use. Thanks, Shatadru

02 March 2021 1,787 2 View

Can chitosan alone can act as a reducing agent for Cu(0) nanoparticle sythesis?

[Synthesizing Cu nanoparticles without using chemical reductants]

01 March 2021 8,359 1 View

What are the new 2D nanomaterials were used for Silver nanoparticles stabilization?

In the stabilization of AgNPs are vital in current research interest. However, some of the 2D nano-materials like graphene oxide, MoS2, etc... previously used to stabilize it. But still they shown...

01 March 2021 2,207 3 View

What is the state of the drug inside solid lipid nanoparticles (SLNs)?

I am a little confuse with the mechanism of solid lipid nanoparticles (SLNs). The main point of encapsulating drugs into SLNs is because some drugs have low solubility in water. Therefore, SLNs...

01 March 2021 3,703 3 View

How to check the uv-vis absorption of nanoparticle by surface plasmon resonance?

I try to check the uv-vis absorption of Indium nanoparticle. Now I am measuring in solution, can I measure it in the form of a film?

01 March 2021 930 3 View

Distribution of particles in metal matrix?

How would define the "good" and "poor" distribution of particles within the matrix. Is there a quantitative solution to assess the distribution of the particles, which then having denotation of...

28 February 2021 7,397 8 View

How can I calculate the rdf of water molecules around 'Na' ions that are closest(adsorbed) to the nanoparticle(solute)?

Hi, I want to calculate the radial distribution function for water molecules around the Na+ ions adsorbed on the surface of a spherical nanoparticle using the gromacs trajectory dynamically? For...

28 February 2021 5,650 1 View

LEDs on Vis Light photo degradation of MB water sol via N doped TiO2 in a mini flume?

Good day to all, I have no experience with light emitting diodes. I am building a glass mini flume to demonstrate the photo degradation of Methylene Blue in water running over self cleaning...

26 February 2021 4,026 5 View

Can anyone share his experience regards Smoothing in origin?

I am working on TiO2 composite material and the results of XRD have a lot of small/junk peaks and while I apply a smooth filter in Origin then the other characteristics peaks disappear so anyone...

26 February 2021 8,183 3 View