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Questions related from Najme Dehghanbanadaki
Dear all, I performed a simulation of a membrane-transporter and ligand for 50ns. During the simulation, and as I expected, the ligand comes out of the transporter protein and does not come back....
08 February 2024 1,439 3 View
I simulated a 600 a.a receptor containing two separate 300 a.a domains in complex with three different ligands. I want to calculate and compare the collective motion of each domain in these three...
10 August 2020 6,151 2 View
I performed a molecular dynamics simulation for a peptide-receptor complex using the Amber03 forcefield and TIP3 water model. The simulation is convergent in 50ns. Based on the Amber tutorial,...
06 April 2020 4,052 4 View
Hi every one. I have a protein with a palmitoyl bound to it with a esteric bond(palmitoyl OH group bound to OH group of a amino acid serin). does any one have a similar experience? any help will...
06 February 2017 1,928 4 View
Hi i work on a bioinformatic project about ebola virus, i need to have the protein sequence of about 1000 viruses but i have just they uniprot id. how could i get theire sequences from the web...
26 July 2015 6,432 4 View
We could set temperature with kinetic energy in MD. How about pressure in NPT phase?
20 January 2015 8,842 7 View
The following is written in the article below: (A) Cancer cells in 6-well plates were treated with mouse pept ( 2 mM), human peptide (4 mM) or control peptide (4 mM) in a medium containing 2% FBS...
29 June 2014 8,317 6 View
I have problems with calculation of the interested bonds force constants in Gaussian output file. I searched the freq-output file of my project and just found this string "Internal Coordinate...
17 June 2014 8,187 9 View
I don't have access to bovine insulin which used add the protocol of cell culture. I want to use human insulin for the culture so I have three question: first, has anyone used human insulin for...
26 May 2014 4,628 5 View
