Sivasakthi Paramasivam

7 Questions 14 Answers 0 Followers

Questions related from Sivasakthi Paramasivam

While performing MD simulation, is it possible to add other ions while solvating in addition to 0.15 M of NaCl and MgCl2?

Can an MD simulation be performed by adding other salts by varying their concentration inside the box?

02 May 2023 9,208 3 View

How can be the protein immobilized s-CM5 sensor chip stored?

I have stored the cm5 chip in 50 mL of HBS-EP buffer pH 7.0 at 4°C... which buffer can be used for long-term storage of the chip?

11 April 2023 4,275 2 View

In a MD simulation, a protein complex with > 600 amino acid can have a RMSD over 1 nm (10 Angstorm)?

MD simulation of a protein complex with more than 600 AA residues shows an average rmsd between 1-1.5 nm. can the protein complex can be considered stable? Besides sometimes i see a jump in the...

07 November 2022 6,281 4 View

Is it possible to indulge a dimeric protein (Target) into docking against another protein (Bound to a metal ion) using HADDOCK server?

I have been using CLUSPro 2.0 for protein-protein docking, but it does not take the metal ion into consideration because it selectively takes the protein chain. In contrast, HADDOCK considers the...

07 June 2022 3,264 4 View

Is there any way/tools to interepret the molecular dynamics simulation results beside XmGrace?

I have done MD simulation and want to interpret and plot the data from the files. As my PC did not have enough specs for Dual boot OS because the XmGrace tool is supported only on Linux. Though, I...

26 April 2022 4,215 3 View

Whether ethical committe (IAEC) approval is needed for samples procured from butcher shop?

I am devising a study to evaluate the invitro anti- resorptive effect of my sample in bovine bone procured from butcher shops/markets. Though there are studies in which the samples from...

21 September 2021 4,226 6 View

DNS reagent (Miller et al., 1959) precipitates when added to a sample of acid hydrolysate for quantification of reducing sugar?

DNS reagent was prepared accordingly as prescribed in Miller et al., 1959. but it precipitates when added to a sample which is acid treated. could anyone explain? is there any other alternative?

27 March 2019 7,325 0 View