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Questions related from Sichaib Zeineb
Hi, I have a Gaussian cube file (.cube) that I obtained with gmx spatial. It represents the spatial density of cholesterol during a simulation (Protein in a membrane with explicit solvent). I...
04 April 2019 9,192 1 View
Hi, I have a Coarse-grained simulation of a dimer with 5 transmembrane helices for each monomer and I would like to calculate the tilt angle of each monomer with the respect to the membrane...
01 January 2019 6,007 2 View
Dears, I run several Coarse grained simulations of a transmembrane protein using Martini FF. In order to do a deep analysis of my systems, I backmapped a part of the trajectory from CG to AA....
10 October 2018 4,393 2 View
Dears, I run MD simulation on a transmembrane protein. When I visualised the frames, it seemed that I have some loss in alpha-helix (TM region). How can I quantify this? NB: I used timeline of...
08 August 2018 4,197 4 View
Dear all, I would like to simulate a protein which is located in the Mitochondrial Outer Membrane (OMM). I was searching in the literature about lipid composition of this latter (in Mammals) but...
02 February 2018 5,073 2 View
Dear all, I'm running simulations on membrane proteins (POPC) using Desmond software and I would like to use GROMACS tools to analyze certain parameters related to the membrane. Exemple: -...
03 March 2017 1,045 2 View
Dear all, I run MD simulations using GROMACS of a protein in the apo and holo form and I have to analyse the differences between the two forms. What kind of tests that can be performed? Thank...
11 November 2016 8,161 5 View
Hello, I have missing atoms and residues in my PDB file and I need to fix them in order to proceed with pdb2gmx (GROMACS). I used swissModel but the generating file is lacking the final residue in...
05 May 2016 7,544 6 View
Dear all, I'm working on simulating a homodimer with its cofactors (hem, THG) and its substrate with GROMACS. Since my system is complex, I decided to start first with a monomere taking only...
05 May 2016 687 2 View
Hi every one, i need ur help please: i'm preparing my final project about the implication of autoantobodies and inflammatory proteins in systemic sclerosis and i can't find any articles about...
05 May 2011 8,303 3 View
Hi every one I need informations about the implication of inflamatory proteins in systemic sclérosis (Articles, books.. ) I really appreciate ur help
05 May 2011 8,374 0 View
Why women seem more affected by autoimmune diseases than men??
05 May 2011 5,753 10 View
why we work always in the dark when using fluorochromes?
04 April 2011 7,914 1 View
04 April 2011 7,506 6 View
04 April 2011 5,096 0 View
