I need a molecular dynamics freeware.
A best free software you can use for molecular dynamics simulations is Gromacs where you can study the dynamicity for small molecules as well as for the macromolecules.
I did a simple organic reaction where I left with excess of Polyhydroxymethylsiloxane (PHMS) in the final product solution. I tried to extract it with aqueous layer, but I failed. Let me know, if...
08 September 2015 2,858 3 View
I have a protein-protein complex and therefore, need a visualiser to look at those amino acids which are at interface of these proteins. However I am also interested to see the interactions...
06 July 2015 9,841 15 View
when we do superpose of 3 pdbs together (1 on 2, 2 on 3, 3 on 1) and after that if we change the sequence of superposition, will there be any possibility to see the change in RMSD value (before...
05 June 2015 8,201 7 View
I have 6 receptors and only 1 ligand. In the meantime I interested to do the docking in all these receptor. Is there any way where we have a generalised way to dock this compound to these receptor...
10 November 2014 4,551 12 View
Hi I am looking for a MD simulation calculations for Small molecule-Protein interaction. But right now I am limited to Windows. So please let me know if there is any software which is useful in...
10 November 2014 3,958 10 View
I want to dock a carbohydrate molecule as a ligand on a protein. What is the best scoring function/force field that I can use for this type of docking?
10 November 2014 3,253 5 View
I want to know about the tools available for searching for a protein or receptor for a known ligand.
09 October 2014 6,300 9 View
What is the best reagent which can be useful in the reduction of 2,4-dinitrobenzaldeyde?
07 August 2014 1,894 16 View
What we know is that the proteins get acetylated at lysine moiety. But looking into the structure, we got around more than one lysine moiety. Then how it can be possible to find out which lysine...
07 August 2014 1,253 6 View
Recently I was encountered with a problem where structure shown in figure is not able to get converted to any product. May be possibly due to its resonance effect or any other effect between the...
06 July 2014 1,715 18 View
I have virus (viral hemorrhagic septicemia virus) in suspension and the experiment will not involve cells. What level of TCID50 is preferred?
11 August 2024 3,115 1 View
I am developing a predictive model for a water supply network that involves 20 influencing points. However, I only have historical data for 10 out of these 20 points. I would like to know how to...
10 August 2024 4,005 2 View
Usually, additive manufacturing techniques like SEBM, SLS, and SLM are used for interconnected porous lattice structure generation with sizes of >100–200 micrometers. Can the Fused Deposition...
09 August 2024 7,892 0 View
I need to model an anisotropic material in which the Poisson's ratio ν_12 ≠ ν_21 and so on. Therefore, the elastic compliance matrix wouldn't be a symmetric one. In ANSYS APDL, for TB,ANEL...
09 August 2024 5,048 2 View
I am trying to simulate vehicular loading on an orthotopic steel deck bridge section in ABAQUS software. The red arrow mark in the attached figure indicates the direction in which the vehicle will...
08 August 2024 719 0 View
Dear fellow researchers, I am currently working on a paper where I need to provide a reliable reference that defines and distinguishes between 3D mesh models and 3D city models. Although I am...
06 August 2024 9,986 2 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
I am working on Abaqus/Explicit(Quasistatic ) for the deformation of the auxetic structure model. Please explain how the plastic input value should be considered from the true stress-strain curve...
05 August 2024 454 3 View
I am seeking experimental or applicable data for the liner (LLDPE) interface in FLAC3D numerical modeling of a large stockpile. Could you please recommend suitable references? The preferred data...
05 August 2024 3,665 0 View
kindly reply me. Thanking you in advance.
05 August 2024 7,727 4 View