Serhii Vakal

6 Questions 20 Answers 0 Followers

Questions related from Serhii Vakal

How can I calculate the missing topology parameters for small organic compounds?

Dear colleagues, I have got few complexes of my protein with different low molecular organic ligands, and now I want to assess the binding stability through MD simulation in NAMD. Of course, there...

11 November 2017 5,101 2 View

How can I measure the binding energy experimentally?

I have a wild-type enzyme 'Ewt' and few mutant forms of this enzyme ('Emut1-Emutn'), and I want to compare energy of binding (Gb) of a substrate 'S' to these enzymes. I know that binding energy...

10 October 2015 9,083 12 View

How can I find out the sequence differences between two genomes?

I need to make a comparison of two large genomes of very similar organisms. Is there any software capable of visualizing the exact positions that vary in alignment? It's too difficult to look...

03 March 2015 517 9 View

Is there a scaffold (skeleton) composed of protein filaments inside mitochondria?

I've read a lot of articles on cytoskeleton and mitochondria, but still haven't got a clear answer about existence of internal scaffold inside this organelle.

03 March 2015 1,747 10 View

Is there a software for large-scale analysis of mutational effects in proteins?

Dear colleagues, I need to evaluate the effects of mutations in all positions of query protein sequence (protein sequence randomization) in order to find the most destabilizing mutations. Doing it...

02 February 2015 3,840 6 View

CLOSED: Anyone with skills in studying protein-ligand binding stability by MDS?

Thanks, everyone who replied!

01 January 1970 344 6 View