How to dissolve cross-linked Amberlite IRC120 H, hydrogen form resin?

Hello all, I have used Amberlite IRC120 H, hydrogen form acidic cation-exchange resin for the ion-exchange of waterglass [sodium silicate solution -- 40% Sodium silicate (mol ratio > 3.2)...

21 February 2021 5,614 3 View

What molecules bind to dsDNA?

Hello, there are some molecules that bind to double-stranded DNA; for instance, SYBR green and some antibodies. Are there more examples? Thank you

25 January 2021 7,595 4 View

What are best conditions for in vitro hybridization?

Hello, I would like to hybridize a probe and an anti-probe (ssDNA oligonucleotides) in a reaction vessel. What would be the best buffer to use? and the temperature of annealing? Thank you

06 December 2020 4,121 0 View

Which is the best statistical approach to an experimental measurement?

Hi everyone, my question is the following. I have to perform an experiment with the aim of finding a correlation between a quantity X (e. g. temperature) and a quantity Y (depending on X). Which...

06 October 2020 3,911 6 View

How to activate polystyrene with carboxyl group?

Is there a simple (that is one that requires few and not very exotic reagents) chemical reaction to "activate" or "functionalize" the polystyrene of a simple microtitre plate? In other words, I...

06 September 2020 233 3 View

What is the stability of EDAC in aqueous solution?

06 September 2020 4,305 3 View

What test to compare shannon index results?

Hello, I have obtained the following Shannon indices from a trio of samples: 27.73 (healthy tissues), 24.55 (primary colon tumor), and 1.20 (metastatic tissues). The indices have been obtained...

30 August 2020 5,543 1 View

What is the concentration of acid for an ELISA stop solution?

Hello, what is the correct molarity of a stop solution for a peroxidase using o-Phenylenediamine dihydrochloride (OPD)? I am getting all sorts of molarities, from fractional up to 3 M according to...

01 July 2020 3,729 1 View

Is there a database for bacterial features?

Hello, is there a repository of the basic characteristics of bacteria, such as maximum growth rate? In the works related to the modelling of bacterial growth, the parameters requested are always...

25 February 2020 5,498 2 View

Can the PCR fail to amplify high loads of target?

Hello, I did the PCR (long-range, target ~5 Kb) that is shown in the attached file. The lanes are: 1. ladder 2. target (plasmid purified from E. coli after transfection), 50 ng/uL corresponding to...

18 February 2020 6,863 3 View

How to calculate Ligand-active site distance in a ligand-protein complex from MD simulation?

I have run a MD simulation of a ligand-protein complex in GROMACS using CHARMM forcefield. Reviewer has asked me to calculate Ligand-activesite distance and binding free energy of ligand with...

27 February 2021 4,703 1 View

What are the potential shell well and atomic solvation parameters for the boron atom?

I have a protein-ligand docking project. The ligand contains boron atoms that are not detected by Autodock software. To solve this problem, it is necessary to introduce the boron atom to...

19 February 2021 1,236 1 View

How long does it take to design and validate transition state analogue inhibitors?

Hi, I'm asking from the point of view of designing a research plan: How long (approximately) can it take to determine the transition state structure of an enzyme substrate using kinetic isotope...

14 February 2021 2,610 1 View

How to check if the PMF profile obtained from ABF simulation is correct?

I am doing ABF simulations to calculate ligand binding enegy. The PMF profile that I get using single long ABF simulation is attached as pmf_total.png. When I do this ABF calculation with 10...

10 February 2021 4,170 2 View

Ligands with 3,4,5-trihydroxyphenyl group?

Hi In the design of a bidentate ligand with imine group, is it okay to have a 3,4,5-trihydroxyphenyl group in the structure? In other words, does the 3,4,5-trihydroxyphenyl group compete with...

08 February 2021 4,977 7 View

How to Remove different version of atom from pdb Crystal Structure for Docking Preparation?

I am new to Docking and MD, and currently try to catch on it. I try one of the webserver for docking, but unfortunately not working. it says " Your PDB contains multiple forms of the same residue...

08 February 2021 7,426 3 View

Is there any difference between "SEP" as a non standard residue and phohophorylated serine?

I am trying to run a molecular dynamics simulation for a ligand that contains a "SEP" residue. also, I am preparing my files using Charmm-GUI using charmm36 ff, but it says that it will rename my...

31 January 2021 6,321 1 View

How do you get around this AutoDock Vina error?

I get the following error messages after running the simulation: Sorry, there are no Gasteiger parameters available for atom ligandx.ligand:A:lig1:O7 AutoDock Vina ligand docking initiated for...

26 January 2021 3,822 3 View

The dimensionality of protein and ligand is reduced after docking?

I used autodock to complete the docking between the ligand and the protein. I have a question, why the dimension of the result after docking is much smaller than the dimension of the protein...

24 January 2021 7,363 3 View

Best tool to build missing residues, minimize and validate a ligand model?

I am working on a ligand that is co-crystalized to parotein, but the ligand is missing some residues that makes it appear as if it was separated into two ligands! what I need is to connect them...

23 January 2021 3,975 7 View