How common is substitution at position 7 of adenine ring?

More Tomáš Hluska's questions See All

Is there multiple-alignment tool which would not neccassarily align all sequences together?

When I get results from sequencing, they often overlap only partly or not at all. In such case it's easier to align them with the "parental" sequence (of what I expect), to see where they align....

01 February 2020 8,336 3 View

A simple method for quantitative separation of apoplast and plant cells?

Hello everybody, I wish to separate apoplast from the rest of the plant (i.e. intact cells) to see whether the compound I treat the plants with goes inside or stays outside. When I mentioned this...

07 August 2019 2,886 3 View

How to make a dot plot?

How do I make a dot plot like in this paper Show the data, don't conceal them in Figure 1? All I'm finding on the Internet are only this type of dot plots:...

05 June 2019 2,092 5 View

How can I improve binding to chitin beads?

I express my protein in pTYB12 vector as fusion with intein and then try to purify on chitin beads. Typically, I load overnight at low flowrates (something like 0.3 ml/min). The loading buffer is...

04 May 2019 2,589 7 View

How to determine mode of action of a certain compound?

I'm working with plant hormones cytokinins - derivatives of adenine with a side chain at the N6-group. They are mostly active as free bases (with no modification on the adenine core), or maximally...

02 March 2019 3,322 11 View

I have two questions regarding adenine conjugates at N9 position /?

My first question concerns lupinic acid - conjugate of adenine derivative with alanine https://commons.wikimedia.org/wiki/File:Lupinic_acid.svg The question: What type of bond is it between the...

08 September 2018 8,949 0 View

Is the cell lysis efficiency by ultrasound affected by cell density and/or the volume?

Hi everybody, I'm currently expressing proteins in and extracting from bacteria. The procedure is that I pellet the bacteria from bioreactor, resuspend in buffer (50 mM Tris/HCl, pH 8.0; 1M NaCl;...

07 August 2018 2,453 9 View

I have a few questions about growing E. coli in bioreactor - and the obligatory question mark?

Hello everybody, I'm currently growing E. coli in bioreactor and I have experience only with P. pastoris in bioreactor, so I'm not sure, how should it behave. With Pichia, one can try hard to...

02 March 2018 9,364 4 View

Does ligand have affinity towards protein or vice versa?

In the texts, it's often written, that the ligand has affinity towards a protein (with appropriate affinity constant). However, to me it always occurred that the protein binds the ligand and...

09 October 2017 6,994 0 View

Looking for a paper about bacteria persisting in plants over generations, anybody can help?

Some time ago (my guess would be +-2 years), there was a paper where they showed that some bacteria are able to transfer from maternal plant to seed and to the new plant. I think I saw it only at...

08 September 2017 6,049 0 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

Can two EC50 values with different hill slopes be compared?

Hello, I fit a classical dose response curve Y=Bottom + (Top-Bottom)/(1+10^((LogEC-X)*HillSlope)) to my data (not related to inhibitors etc). The model I use is purely qualitative but it fits...

23 February 2021 8,155 5 View

Will SARS-CoV-2 Spike be broken into S1 and S2 by denaturing conditions?

Hello, I am performing a western blot of my SARS-CoV-2 Spike-pseudotyped lentiviral particles. I denature my virus by adding concentrated virus to 2X Laemmli buffer at 1:1, then boiling for...

17 February 2021 4,844 4 View

What is the best temperature to coat an ELISA plate?

Hello, I want to control the temperature of my ELISA plate during incubations to get consistent results. In general, what is the best temperature to coat the plate with antibody? I have been...

16 February 2021 2,377 7 View

Is there a way to tell based on appearance which protein crystal should diffract the best?

I have had unheard of success with protein crystallography lately from a super successful protein expression and purification batch. I have attained a lately reproducible vast amount of crystals...

09 February 2021 5,155 5 View

How to measure the concentration of a labeled protein with no tryptophan or tyrosines?

Hey I'm trying to measure the concentration of a protein I've purified and then labeled with Atto 647 flourescent dye. The protein has no tryptophans or tyrosines (although does have...

04 February 2021 4,482 4 View

How to solve error "Cannot find position restraint file restraint.gro (option -r)." on GROMACS?

Hi, I am about to do energy minimization but the above error occurred, I checked my .mdp file and .top file but could not find the problem. TOP file ; Include forcefield parameters #include...

01 February 2021 780 3 View

Why is Fermented Plant Juice (FPJ) always diluted with water? Could it be diluted with other solvents such as rice water?

I am currently making a research paper with my classmates in Philippine Science High School and we are trying to find references that mixed Fermented Plant Juice with other solvents instead of...

17 January 2021 5,099 4 View

Any stable dye to color acrylamide hydrogel beads?

Hi! We are generating hydrogel beads(50-60um) using microfluidics as single-cell beads. To simply all the experiments (especially the centrifuge), I am looking for a dye. The dye should be stable...

14 January 2021 4,383 8 View

How to measure abundance in an LC-MS/MS experiment?

Is the chromatographic peak a valid measure of a compounds` (relative) abundance in LC-MS data? We have recorded three MS/MS spectra; their retention time falls into a specific chromatographic...

13 January 2021 6,685 6 View