How to determine protein stability using GROMACS?

31 December 2016 7,476 18 View

What is importance of OXT atom found in aspartic acid? Does it participate in salt bridge formation?

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 10,030 3 View

Calcium as a chaotrope or kosmotrope?

04 May 2016 4,266 4 View

What is meant by molecular or rotational tumbling of proteins?

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 4,119 5 View

Which is a more appropriate forcefield ff99IDP (AMBER) or OPLS for disordered proteins?

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 3,387 4 View

What is the ideal time frame for molecular dynamics simulations?

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 7,532 3 View

Is there a way to study peripatric speciation using bioinformatic approach?

10 November 2014 2,269 1 View

How can I study the evolution of disordered proteins?

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 1,617 3 View

What is the importance of glutamine in a protein's structure and function?

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 8,815 5 View

Is there a way to determine single nucleotide polymorphisms using any bioinformatic tool?

I am looking to identify single nucleotide polymorphism nucleotide sequences to study how they have evolved/diverged from each other. Is there any bioinformatic tool to identify such changes in 2...

09 October 2014 9,091 1 View

Can we classify HV and LV lines based on line length?

I have dataset which shows the length of power lines. I need to classify the lines based on the line length. Is there a rule to classify the High voltage (HV) and low voltage (LV) lines based on...

03 March 2021 4,116 4 View

Irradiation data for JAPAN?

Hi, Could you help me to get the latest (2019, 2020) solar resource data for a particular site in JAPAN? PV GIS and NSRDB data are not in reach to JAPAN, I'm looking for some other database for...

03 March 2021 961 3 View

Can you share me how teacher education is managed in your respective national educational system?

I feel that the practice in teacher education in my country is below the expected performance level due to very poor management system. Hope I will learn something from your experiences.

02 March 2021 1,516 4 View

Is it possible for two human neuronal cell lines to have different gene sequence for the same protein?

I am looking at the ATP1A2 (Sodium/Potassium ATPase alpha subunit 2) in two human neuronal cell lines. Expression levels of this protein seems to be almost equal when detected by one antibody....

01 March 2021 3,607 3 View

How can I stain the somatodendritic part of inhibitory neurons in a hippocampal culture with high specificity?

I would like to distinguish the somatodendritic part of the inhibitory neurons in a hippocampal culture (where we expect to have 5-10% of GABAergic neurons). What are the best antibodies and...

23 February 2021 6,756 1 View

Are we using now IT technology effectively?

I discover now two my papers, which are more then 30 years old and which are describing something, what was done in years 1985 -...

21 February 2021 5,008 3 View

How to use Remote sensing and GIS applications for mapping the available medicinal plants within the locality/municipality?

Hello, I'm very interested in mapping and managing the conservation of the Philippine traditional medicinal plants, in which I think is very helpful in the field of medicine for further analysis...

21 February 2021 374 5 View

The PC12 cell line characteristics?

Hello dear scientists, Does the undifferentiated PC12 cell line in terms of chromosome characteristics, proliferation, and drug reactions have the characteristics of cancer cells? Where is it...

21 February 2021 8,945 3 View

What are alternatives for B27+ Supplement in neuronal cell culture?

Hello everybody In our iPSC-derived neuronal culture we use Maturationmedium, supplemented with B27+. As Thermo Fisher run out of stock and can deliver earliest in May, I wanted to ask whether...

16 February 2021 3,348 1 View

How to consider effects of rapid warm adaptation in modeling of ecological impacts of warming?

I would highly appreciate it if my fellow ecologists (biologists) provide their opinion on the thoughts below [esp., shortly tell us which path may be more effective, if they know another way, if...

15 February 2021 3,642 6 View