How do you use the helical wheel diagram?

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Can anyone help me to identify the species in thin section (red arrow)?

This is a Miocene limestone thin section and the specimens is probably belongs to the larger benthic foraminiferal group.

05 February 2024 3,709 1 View

Can anyone help me to identify the species in thin section (blue arrows).?

This is from Miocene limestone and we are thinking this is a section of larger foraminifera.

05 February 2024 9,164 1 View

In ASTM 4170 fretting wear , is it necessary to have the exact dimensions of the bearing race and the number of the balls?

ASTM 4170 indicates the usage of 9 balls in a thrust bearings and the bearing ball diameter is 7.1mm. However, is it wrong if we use a 11 nos. ball thrust bearing and 6.5mm ball diameter? other...

06 November 2023 6,013 0 View

Can't run AutoDock tools in Windows 11?

I have successfully installed MGL tools 1.5.7 in windows 11. After the installation is finished, when I run "AutoDockTools" by double clicking the icons on the desktop, the windows command prompt...

15 March 2023 9,194 4 View

How long does the protein-ligand simulation take on Nvidia RTX Geforce 3050?

I am running a protein ligand complex simulation using Gromacs 2021 on a Windows Subsystem for Linux. My laptop has Nvidia GeForce RTX 3050 GPU. When i run the simulation of Lysozyme tutorial (as...

06 March 2023 4,755 4 View

Linear structure as drug molecule?

I want to perform molecular docking between a receptor and a ligand molecule, but the ligand molecule is a linear chain (eg: nonacosane). I have downloaded the structure from PubChem. Is it okay...

25 January 2022 1,335 3 View

How to draw chemical structure of Silver Nanoparticles?

The chemical synthesis of silver nanoparticles using Silver NItrate and sodium borohydride as a reducing agent gives me the chemical synthesis of silver nanoparticles. But I want to know how can I...

14 November 2021 2,238 3 View

PCR inhibitor: Isopropyl acetate (2.5%)?

If extracted viral RNA contains 2.5% isopropyl acetate, would it be acting as PCR inhibitor?

20 October 2020 3,229 3 View

How does Lithium helps in controlling friction and wear in lubricants?

Tribology of lithium.

09 December 2019 554 2 View

How to calculate lipid concentration for Large unilamellar vesicles (LUVs)?

I am trying to find out a suitable technique to calculate the lipid concentration of LUVs. In between the preparation process I loose a portion of the lipid. So want to know how to calculate the...

01 May 2019 7,559 4 View

Why my PBS script is showing error?

Hi everyone! I have been trying to run my simulation on BRAF server. However the script I am loading is not working. It shows the following error: 'Sbatch : error: This does not look like a batch...

31 July 2021 3,825 3 View

Could anyone tell me the step by step procedure to perform MD simulation of protein-ligand complex using the BRAF server ?

I wish to perform an MD simulation for my Protein-ligand complex in BRAF server. Kindly tell me the protocol.

20 June 2021 9,594 3 View

Developing competitive inhibitor for the phosphosite (either for kinase ATP binding site or phosphate PTM) is possible?

I am trying to understand that without phosphomimics, will it be possible to design chemical compound that can displace phosphate (ATP or phosphopeptide) interaction. I looked into type1 kinase...

03 September 2020 1,208 0 View

Advice on the qPCR experiment design ?

I am currently trying to examine the effect of of NCV's on gene expression in known cardiomyopathy genes (BRAF, FKTN, TGFB3) qRT-PCR was performed with RNA from the patients with confirmed NCVs...

15 August 2019 7,226 0 View

Is anyone using BRAF facility of C-DAC Pune for MD with Gromacs?

I am trying to submit the MD production phase job on BRAF C-DAC server for which I have compiled newer version of Gromacs (5.1.2) through my login. I can also use old version of Gromacs 4.5.6...

18 March 2019 2,413 0 View

Which is an appropriate Papillary Thyroid cancer cell line with the BRAF V600E mutation to work on?

Papillary thyroid cancer is a common endocrine malignancy, and the BRAF V600E mutation confers it with aggressiveness and metastatic potential. I need a proper cell line, to study this form of cancer.

02 March 2019 5,377 1 View

Where and how to determine the right drug concentrations (Carboplatin, Paclitaxel and BRAF/MEK inhibitor) to use on melanoma cell lines?

I'm using melanoma cell lines (SK23mel, 1102mel, 624.38mel and 526mel) for the proliferation assays. I would like to know the drug concentrations (alone and in combination) to be used for the...

05 November 2018 7,548 1 View

Gene sequencing to check a SNP?

Hello, I have two cells lines: A375 and Mel-ST. This last one is an immortalized cell line from primary melanocytes. The BRAF gene should be mutated with V600E mutation in A375 cells but not in...

21 June 2018 8,717 6 View

Gene sequencing to check a SNP?

Hello, I have two cells lines: A375 and Mel-ST. This last one is an immortalized cell line from primary melanocytes. The BRAF gene should be mutated with V600E mutation in A375 cells but not in...

05 June 2018 2,571 7 View

MD simulation of protein-ligand complex using the Gromacs program available at The Bioinformatics Resources & Applications Facility (BRAF) at C-DAC?

I have taken The Bioinformatics Resources & Applications Facility (BRAF) at C-DAC. But donot know how to use it for MD simulation of protein-ligand complex using Gromacs program. Could...

04 May 2018 417 6 View