Brandt Bertrand

8 Questions 18 Answers 0 Followers

Questions related from Brandt Bertrand

Why MD simulations of peptides in water require more resources than in the lipid bilayer environment?

Hi I have been running MD simulations of antimicrobial peptides in both water and in lipid bilayers. I have noticed that for my MD simulations in water that the calculations are much slower...

12 February 2025 3,924 4 View

How do I determine or select carbon atoms for calculating Area per Lipid?

I want to calculate Area per Lipid using the VMD membrane plugin, and I need specific carbon atoms for the calculation. How do I select carbon atoms for calculating Area per Lipid? How do I know...

13 February 2023 6,494 0 View

Does anyone have the estimated Stoke´s radii of FITC Dextrans at hand?

Hi I´m planning on estimating pore size induced by antimicrobial peptides in liposomes by using FITC dextrans. However, I can´t seem to find the estimated Stoke´s radii for FD10S, FD40S, FD70S,...

11 June 2021 7,413 0 View

How can I build a membrane patch with multiple monomers of a peptide?

Hi, I have been looking around for ways to insert various monomers of an AMP in membrane bilayers. To start-off, I have been using Charm-Gui, but it seems that I can only insert one peptide at a...

30 November 2020 8,860 2 View

I am trying to make LUV liposomes composed of POPE:POPG, and seem to have problems with the hydration process. Any suggestions that could help?

I have had no success with making liposomes out of POPE:POPG (3:1). And, it seems as if the trouble is with the POPE lipid, since other lipids gave me no trouble. I have increased hydration time...

06 June 2018 8,835 14 View

Was IPTG first synthesized through substrate engineering?

Was IPTG intentionally first synthesized as an analogue of lactose through substrate engineering? Or, was it previously synthesized and was stumbled upon as being an inducer of the lac operon?

18 March 2015 5,178 1 View

Are there any good tools for determining or predicting dimer or multimer formation for large proteins?

I'm currently sequencing laccase isoforms. I basically have the sequences. However I would like to predict the formation of multimers due to the fact that this phenomena occurs frequently in...

19 February 2014 6,436 1 View

Can someone suggest literature and software for designing degenerate primers for laccase cDNA sequences?

I am trying to clone various laccase isoforms sequences via mRNA and cDNA synthesis. I need to design a pair of degenerate primers to amplify as many sequences as possible.

23 October 2013 5,263 6 View