Can anybody suggest a free web-based induced-fit docking tool?

I am looking for a free web based docking tool that takes into account backbone protein flexibility via induced-fit upon ligand docking?

01 February 2019 7,439 8 View

How to save/export a 3D SDF file using Open Babel?

I want to convert a SMILES code into a 3D SDF and PDB files to use for docking.I am using the following module: http://www.cheminfo.org/Chemistry/Cheminformatics/FormatConverter/index.html The...

01 February 2019 7,418 5 View

What are the kcat values of yeast hexokinase (Saccharomyces cerevisiae) for both glucose and ATP?

I am looking for kcat values (glucose and ATP) of hexokinase enzyme from common bakers yeast under physiological conditions (~pH 8, ~ 25 Deg C) along with reference preferably using...

06 July 2018 8,262 4 View

What are dimensions of ortho-silicic acid?

I need the exact diameter of ortho silicic acid, Si(OH)4. Kindly provide reference if possible. Thanking in advance for help.

04 May 2018 3,480 5 View

Is there any biological role (significance) of FRET from Trp residues to heme in peroxidases such as in Horseradish peroxidase?

Although HRP lives under darkness most of its natural life, what possible biological role Energy transfer from Trp to heme can have? Can it possibly effect Fe reactivity in Compound I or II if...

05 June 2015 4,665 3 View

What to do if you realize after submission to an open-access journal that it has bad reputation?

07 August 2014 9,881 2 View

How can I construct a Calcium-Green Standard curve without using commercial kit?

I want to construct a calcium standard curve using Calcium-Green dye and my own 1-39 uM calcium chloride solution. Is it possible to construct a good standard curve without using the commercial...

08 September 2013 3,001 3 View

What is the recipe for complete protein hydrolysis using nitric acid?

I want to completely hydrolyze a peroxidase enzyme with NITRIC ACID to determine Calcium content by ICP. Can anybody tell me a tried and tested simple recipe for complete protein hydrolysis...

07 August 2013 7,619 5 View

What is a positive peak at 305 nm in a purified protein using Near-UV CD show?

The protein has 3 Tyr and 3 Phe and 0 Trp residues. It show a sharp peak at 365 nm corresponding to Phe and 3 peaks between 272 and 285 nm corresponding to Tyr but I am wondering what a positive...

04 May 2013 5,905 3 View

Trp to heme energy transfer.

Is it possible that unfolding of a heme protein followed by trp fluorescence show decrease in intensity at 336 nm with increasing temperature. Normally, in heme proteins, emission intensity...

02 March 2013 805 0 View

How to repeat an operation on an atom selection for multiple times in PyMol?

Hi, I am trying to construct a multi-layer fibril structure from a single layer in PyMol by translating the layer along the fibril axis. For now, I am able to use the Translate command in PyMol...

02 March 2021 4,569 4 View

Why Austenite grains in steel show much more twinning than ferrite grains?

It is oftentimes said to be a distinctive metallographic trait that differentiates a fully austenitic and a fully felly ferritic steel without etching that might distinguish between two. Why...

02 March 2021 728 2 View

How to calculate average trend in maximum annual NDVI from MODIS?

I am wanting to calculate the average trend in maximum annual NDVI in Iceland from 2010-2020 using MODIS MYD13Q1 V6. How would I do this? I have currently inserted the NDVI bands from the MODIS...

02 March 2021 752 2 View

Which is suitable for use with Python? MySQL or SQL Server?

Which is suitable for use with Python? MySQL or SQL Server? What is your suggestion?

01 March 2021 3,422 3 View

Why might my GFP tag be dissociating from my plasmid after transfection?

I have a set of stably transfected cell lines all transfected with plasmids containing GFP tags on the C terminus. During a western blot using anti-GFP antibody, one of my plasmids has dissociated...

01 March 2021 9,310 4 View

Why does two different bioinformatics tools for the same proteins show different subcellular localizations?

During a computational analysis, I found that for a protein of a plant, two different subcellular localizations are seen using CELLO and WoLF PSORT. For example, in CELLO, it identified the...

01 March 2021 6,729 2 View

Precipitate after adding laemmli buffer to protein solution containing Potassium Acetate?

Hi, I am running a size exclusion chromatography experiment with a buffer containing Potassium Acetate as a salt. I analyse these fractions through SDS-PAGE. After boiling my SEC fractions in...

01 March 2021 2,622 3 View

What is the most suitable server for predicting protein structures in bacteria?

I have used the i-Tasser several times, however it has been unavailable for several days. I tried the swiss-model, but the output was not very pleasant due to the model used. Is there any other...

28 February 2021 4,521 3 View

Do you need the CMV enhancer before the CMV promotor for a proper function of CMV on the gene that follows?

I'm a student and I have to produce a cell line with a knockin for the NRF2 gene with GFP. I have to put a promotor in front of the GFP because the gene will be too far away from the promotor of...

28 February 2021 7,127 2 View

Are protein samples in SDS compatible with ELISA?

I have used an AllPrep DNA/RNA/Protein Mini Kit QIAGEN kit to extract RNA and protein from my samples. At the end of the protein purification, I resuspend my protein in 5% SDS. Will these samples...

28 February 2021 7,370 3 View