When observing elastic modes of proteins, one of the results files shows deformation energy plot. What is the significance of deformation energy when studying protein dynamics?
We wish to perform a molecular dynamics simulation of cell division protein from a hyperthermophile species at 37 deg cel to check for its stability. Is there a specific analysis in GROMACS for...
31 December 2016 7,717 18 View
During a molecular dynamics simulation i have found salt bridges being format being N(eta) atoms of Arg and OXT atom of Asp. What is the role of OXT atom and is such a salt bridge formation possible?
08 September 2016 10,161 3 View
Is calcium a chaotrope or Kosmotrope? The Hofmeister series shows it to be a kosmotrope, however, some sources refer to it as a chaotrope. Does it behave differently in biological systems as...
04 May 2016 4,391 4 View
Several computational models describe rotational tumbling and rotational relaxation time when describing protein motion and dynamics. What is meant by relaxation time and how is related tumbling?...
09 October 2015 4,252 5 View
I wish to observe disorder-order transitions using MD. Which would be a more appropriate and accurate forcefield, ff99IDP (AMBER) or OPLS?
06 July 2015 3,511 4 View
I wish to observe helix-coil transformation using MD simulation. What would be the minimum time scale for the simulation to observe such conformational transitions?
06 July 2015 7,659 3 View
Peripatric speciation as type of divergent evolution where a small subpopulation remains within the habitat of an original population but enters a different niche. Is there a way or a method of...
10 November 2014 2,418 1 View
Is there as way or approach to understand and study the evolution of intrinsically disordered proteins based on their amino acid sequences using phylogenetics?
09 October 2014 1,739 3 View
I have noticed that several microtubule-associated proteins contain stretches of glutamine residues. Is there a particular reason for the presence of such Q-rich regions?
09 October 2014 8,926 5 View
neurons are largely made of a cell body, dendrites and the axon. How did the neuron evolve into such a complex structure? Was the first neuron only a cell body and later developed axon and dendrites?
09 October 2014 7,256 0 View
"PUBLISHING IN A SCOPUS JOURNAL" Researchers are now at a cross road. The critical need to publish in a Scopus or ISI, etc journal is ever vital. Journal Publication fees must be submitted....
10 August 2024 8,621 1 View
Hello everyone, I am currently developing a thesis proposal and would appreciate your input on its viability and how to effectively carry it out. My proposed topic is: "Does the perceived threat...
10 August 2024 8,992 0 View
Who will bear moral responsibility for the deaths of thousands of people in the event of an earthquake? Weeks and months remain before the onset of strong earthquakes that bring death to...
08 August 2024 6,134 12 View
Hi! So i attempted to understand a novel protein behavior towards heat application by analyzing its secondary structure change. I subjected the protein to a thermal denaturation analysis using...
06 August 2024 1,989 3 View
There are a huge number of methods for studying objects in space, according to the senses (and not only). Mechanical, thermal, optical, acoustic, electrical, magnetic, based on particle beams,...
06 August 2024 7,102 0 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
After immunohistochemistry of previously fixed in PFA and EtOH and then frozen 20 μm sections of zebrafish brain, DAPI staining is very weak (right) compared to the same sections stained without...
05 August 2024 9,637 2 View
I aim to be as skeptical as possible regarding whether a pair of orthologous genes results in the same phenotype in their different but related bacterial organisms under similar environmental...
05 August 2024 6,787 4 View
Brain and body mass together are positively correlated with lifespan (Hofman 1993). The duration of neural development is one of the best predictors of brain size, and conception is the best...
05 August 2024 6,247 3 View
In the case of a wound l recurrence after radical breast cancer and sentinel lymph node biopsy. Are the sentinel lymph node procedure recommended? If no axillary lymph node dissection was not...
05 August 2024 8,056 1 View