What is the script of the membrane proteins simulations in NAMD?

More Madhu Sudhana Saddala's questions See All

The homology model protein is how much reliable to X-ray crystallographic model protein?

09 October 2015 2,793 0 View

What is free calcium? How can estimate?

07 August 2014 7,896 0 View

I want to calculate a multiple sequence alignment for Nseq sequences. How many pair-wise alignments will I have to calculate ?

07 August 2014 5,658 0 View

How do I perform pattern mining of 12 nucleotide sequences (dataset) in MATLAB?

See above

07 August 2014 2,199 2 View

How do I selectively download 3 fields from every record in UniProtKB?

See above

07 August 2014 7,140 2 View

How can I calculate the RMSE in 2D QSAR studies?

See above.

04 May 2014 1,398 2 View

How can I create a parameter file in NAMD tool?

03 April 2014 4,954 0 View

Can anyone recommend a protein ligand complex dynamics simulations in NAMD tool?

Dynamics simulations.

03 April 2014 3,114 5 View

Which tool is best for MD simulations?

see above

02 March 2014 419 8 View

In silico methods of cancer

There is an upcoming techniques

02 March 2011 6,473 5 View

Can I use a HisTRAP column for affinity chromatography?

I'm working on selecting antibodies against a recombinant protein that has a His-tag. My idea is to first bind the recombinant protein to a HisTRAP column and then use this column for an affinity...

07 August 2024 505 3 View

Are there instances where molecules with larger molecular weights exhibit greater mobility than those with smaller molecular weights?

Hi, I know that low molecular weight (MW) molecules generally tend to have higher mobility, while high molecular weight molecules tend to have lower mobility. However, in my experimental...

06 August 2024 1,495 2 View

For an in-vitro drug release study, what molecular weight cut-off (MWCO) dialysis bag is required for a 117 kDa protein?

kindly reply me. Thanking you in advance.

05 August 2024 7,727 4 View

How to Add Missing Water Molecules in Protein-Membrane Simulations?

I have protein-membrane simulations (PDB, PSF, DCD) and have noticed that water molecules near the protein are not visible in the simulations. How can I fix this issue? Is there a way to place the...

04 August 2024 1,200 2 View

How to start a Molecular Dynamics Simulation?

Is it possible to conduct a molecular dynamics simulation to see the effects of a specific carbohydrate on the structure of lipids (e.g., micelle structure)? I am a beginner in this field and plan...

03 August 2024 3,371 3 View

Which will be the best software for the Hydration shell analysis with molecular dynamics?

I am using a windows system, what software I should use for hydration shell analysis with molecular dynamics?

02 August 2024 3,143 4 View

Can anyone provide me with molecular docking softwares/ websites?

Molecular docking software/ websites?

02 August 2024 8,704 7 View

What is the best blank for nanodrop if I want to read a recombinant protein concentration?

Is it the "elution buffer" or the "dialysis buffer"? Note: I'll be using NanoDrop OneC

01 August 2024 967 3 View

Can we patent a process flow diagram developed using a process simulator but no actual cases is carried out?

Can we patent a process flow diagram developed using a process simulator but no actual cases is carried out? For example consider a process for certain product manufacture where a new process flow...

31 July 2024 781 1 View

Can i use the protease inhibitors during cell membrane vesicle preparation ？?

I am currently working on a project that involves extracting cell membranes, for which we disrupt the cells using sonication. During the initial extraction process, we add protease inhibitors to...

30 July 2024 7,077 1 View