With respect to interaction between a ligand and a protein what does a supramolecular interaction mean?
I want to work towards decreasing side effects of a particular class of drugs. Can anyone guide me as to how this can be done.
09 October 2015 3,358 0 View
what does a subgenomic replicon assay mean? I came across this term in various papers but could not understand it. Can someone please explain its meaning in simple language.
07 August 2015 1,484 0 View
I have come across the term truncated N terminal various times in several papers. I want to know the importance of truncation and what it means. Why truncation is used.
07 August 2015 7,170 1 View
What does root mean square deviation(RMSD) mean. How is it useful wehile developing pharmacophore models and QSAR models?
07 August 2015 7,657 0 View
What is difference between HypoGen and HipHop which are modules for generation of Pharmacophore models? Which method should be used when. Advantages and disadvantages of each.
07 August 2015 8,630 0 View
In protein preparation why is restrained minimization in vacuum needed. What does convergence criteria for heavy atom RMSD mean. What is its importance. What happens if minimization is performed...
07 August 2015 451 0 View
what are tail anchored proteins
07 August 2015 1,280 0 View
In molecular docking we can perform Molecular dynamics. What are the potential uses and how to interpret results in Molecular dynamics.
07 August 2015 5,826 1 View
There are various steps in protein preparation. One of them is refinement. Why is it required?
07 August 2015 9,545 0 View
During protein preparation in Maestro by Schrodinger the bond order needs to be corrected. I want to know what bond order means, its importance and why it needs to be corrected
07 August 2015 7,101 0 View
I am on the lookout for the Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence. Does anyone know where I can find it? Thank you in advance
03 March 2021 3,568 1 View
I have run a MD simulation of a ligand-protein complex in GROMACS using CHARMM forcefield. Reviewer has asked me to calculate Ligand-activesite distance and binding free energy of ligand with...
27 February 2021 4,703 1 View
I had a crystal hit in a well with 0.1M HEPEs pH 7.5, 10%(w/v) PEG 4000, and 20%(w/v) isopropanol. Why is isopropanol in w/v here if it's just solvent? How do I recreate this well condition?
25 February 2021 9,761 1 View
I'm currently working having problem with the concentration for recombinant protein use in western blot, the one been used is Recombinant Human CD19 Fc Chimera Protein-rndsystem which does not...
24 February 2021 8,514 3 View
Hello, I am running a sandwich-type ELISA where I am trying to inhibit a protein-protein interaction using small molecules. For each experiment, I determine my Z' (Z-prime) to determine the...
23 February 2021 7,429 1 View
How to build fluid structure interaction simulation for elastic ring squeeze film damper in COMSOL?
22 February 2021 5,408 1 View
Hello, I am performing a western blot of my SARS-CoV-2 Spike-pseudotyped lentiviral particles. I denature my virus by adding concentrated virus to 2X Laemmli buffer at 1:1, then boiling for...
17 February 2021 4,844 4 View
Hi, I'm asking from the point of view of designing a research plan: How long (approximately) can it take to determine the transition state structure of an enzyme substrate using kinetic isotope...
14 February 2021 2,610 1 View
Hello, I am trying to find kinetic information (such as rate of enzyme production etc.) on the expression of taq polymerase in E-Coli after inserting a recombinant plasmid. Any help would be...
12 February 2021 1,386 3 View
I am doing ABF simulations to calculate ligand binding enegy. The PMF profile that I get using single long ABF simulation is attached as pmf_total.png. When I do this ABF calculation with 10...
10 February 2021 4,170 2 View