Diptesh Das

10 Questions 13 Answers 0 Followers

Questions related from Diptesh Das

Can we consider the maximum absorption of paclitatxal at 211 nm?

During spectroscopic analysis of paclitaxal order from sigma, I am getting the maximum absorption of paclitaxal dissolved in methanol at 211 nm. However, according to the previously reported...

09 May 2023 6,365 2 View

No colonies upon transforming using GENEART site-directed Mutagenesis System?

I have been trying to perform a single amino acid mutation using a the GENEART site-directed mutagenesis system. I isolated the plasmid, fixed its concentration at 50ng/ml for the mutagenesis PCR...

25 July 2021 3,833 4 View

How to parameterize a acetyl group bound to a lysine residue (acetyl lysine) for charmm 27FF in NAMD ?

I am trying to study the dynamics of a prticular protein with its post translational modifications. An unparameterized acetyl group covelantly bound to a lysine residue denies the generation of...

25 July 2021 1,747 1 View

Why on running Heating.conf file in NAMD2 it shows "Warning : Low global CUDA exclusion count ! ?

Upon executing Heating.conf file the log file generated reads "Warning: Low global CUDA exclusion count ! (54185 Vs 54329) System unstable or pairlistdist or cutoff too small. There are no...

07 December 2020 4,697 9 View

Why homology modelled structure of a protein converge at a higher RMSD in YASARA simulations ?

I simulated two different protein one which is a crystal structure and other is homology model at 303.15K for 20ns. Both the protein share a sequence similarity i.e. 98%. The script file is also...

19 September 2020 8,443 3 View

How do I edit md_run.mcr file in YASARA Structure for a simulation with respect to pressure, density at 343.15K to check thermostability?

I am aiming a simulation run in YASARA Structure at 343.15K to check thermostability of a mesophile mutant for which i need to edit the md_run.mcr file with respect to Force field pressure control...

28 May 2020 2,906 5 View

Hello, does anybody has any 5'-FAM labelled oligos transfection protocol using lipofectamine RNAi MAX for buffalo oocyte?

i need a protocol for transfecting the oocyte with FAM labelled LNA Blockers using Lipofectamine RNAi MAX as a transfecting agent. i use to pool 10 oocytes in 100ul of transfecting solution. kept...

10 July 2017 10,053 1 View

Which buffer is appropriate for mature miRNA quantification HiSpec or Hiflex ?

I am using miScript RT II Kit for cDNA preparation from total RNA pool, this kit provides two buffers hispec and hiflex. on QPCR lower ct values comes with hiflex but not with hiSpec. which one to...

27 February 2017 2,696 2 View

How do I optimize annealing temp of expression primers

Hello, I am using expression primers having restriction sites plus extra 4 base pairs, I have tried gradient PCR with Dream Taq as well as Q5 DNA polymerase but there has been no amplification so...

13 January 2017 2,736 3 View

Unusual? dynamics of protein denaturation upon heat treatment.

Performed a 50ns MD simulation (NAMD; CHARMM36FF) at various temperature ( 300, 350, 400, & 450K). for homologous protein pair one of which thermophillic and mesophillic in nature. The...

01 January 1970 7,468 5 View