Questions tagged [biochemistry]

This tag is for questions concerning biochemical methods (e.g. electrophoresis) or those concerning biochemical mechanisms or research. Do not use this tag if your question is merely about compounds often used in areas related to biochemistry or associated with these. These may fall under organic chemistry or the appropriate compound’s functional groups’ tags.

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Which human protein is the most expensive energetically for the human body to create? [closed]

The human body contains between 80,000 and 400,000 different kinds of proteins. Which protein or class of proteins requires the most energy to produce?
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How is it possible to extract DNA without destroying it? [closed]

How is it possible that all the chemical reactions necessary to break down a cell in order to extract DNA don't break down the DNA as well? I suppose another way of asking the question is what makes ...
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How to find the reaction rate in an enzyme reaction?

First time posting questions here, so let me know if I need to edit anything. I need to decide $dC/dt$ and $dP/dt$ when the reaction is like this, where I only know we must have 2 substrates $S$ to ...
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2answers
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Determine vmax and enzyme concentration (Michaelis–Menten)

I am given that the enzyme concentration is $\pu{15 nM}$ and the following data: $$ \begin{array}{rl} \hline S/\pu{mM} & V/\pu{mM s^{-1}} \\ \hline 1 & 0.202 \\ 2 & 0.368 \\ 5 & 0....
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Is glycine the only optically inactive amino acid? [duplicate]

Glycine is stated as the only optically inactive amino acid in one of my textbooks. But if you make up an amino acid, with another $\ce{-CH(COOH)(NH2)}$ for the $\ce{R}$, arranged in the opposite ...
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What is the HOMO of a molecule with 8 conjugated electrons? [closed]

I know this is a basic question. Can I just assume that this will work: solve for n in Huckel's Rule (4n+2), so n=1 in a molecule with six pi electrons? And then LUMO is (HOMO + 1)? *Edited to change ...
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Trying to understand phrase in paper: preventing nonspecific binding of AuNP antibody conjugates using a blocking solution

I am working through a paper, Lateral flow immunochromatographic assay on a single piece of paper. I'm having trouble understanding one of the points! Under the Device fabrication question, it says: ...
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1answer
520 views

SARS-CoV - relative size of the spike protein

I am taking an online course in image analysis and have been asked to use the attached image to determine the size of the SARS-S protein of the SARS-CoV relative to the total of its proteins. However, ...
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1answer
25 views

Carbon 11 radiolabeled inhaled Beta-2 agonist or corticosteroids, is it possible?

Background Positron emission tomography (PET) is a highly sensitive imaging modality that can provide in vivo quantitative information of biological processes at a biochemical level. PET relies upon ...
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3answers
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When an aqueous extract of a substance is said to be administered at a certain quantity, is the quoted mass analogous to one as original substance?

I'm trying to read studies about the possible toxicity of the leaves of some plant often said to possess positive medicinal properties. In the studies, performed on rats, it is usually said that an ...
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4answers
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Ramachandran plot Phi(ϕ) Psi(ψ) dihedral angle Convention for Zero, Positive and Negative value- old and new

Update: possible duplicate: What is the precise definition of Ramachandran angles?. Question modified. G.N. Ramachandran et al, in their own work (PMC) (DOI), did not used phi(ϕ) and psi(ψ) as we use ...
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Electrolysis in Electrophoresis of proteins and DNA

Can electrolysis happen in an electrophoresis assay (such as SDS-PAGE)? To perform electrophoresis, the substances must be dissolved in an aquatic buffer with a previously determined ionic strength. ...
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1answer
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How to I neutralize the smell of (VERY) spoiled milk [closed]

Let's say I have a cup full of milk that had been at room temperature for months (apparently my son was running an experiment...). The smell started seeping out of the makeshift lid, and it's horrible....
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What is the structural formula of a monomer of hydroxypropyl methylcellulose?

I'm studying the properties of the polymer hydroxypropyl methylcellulose (HPMC) with the static scattering technique. I'm trying to interpret the molar mass obtained with a Zimm plot, that is $\pu{(3....
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1answer
66 views

Carbon atoms types in amino-acids [closed]

I'm looking for a table or another kind of schema where I can find which type of carbon atoms (sp3, sp2 etc.) are present in each amino-acid. In my biochemistry books these informations are not ...
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1answer
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Do phosphoryl thiocholines, their uncharged analogs, and other organophosphates, interact differently with Acetylcholinesterase?

As asked in the title, would the various salts -such as hydrochloride or methyl iodide- of V-Agents interact any differently with acetylcholinesterase compared to the neutral compound? For instance, ...
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What do we know about the structure of the amylopectin iodine complex?

I am studying a method of finding the ratio between amylose and amylopectin using the difference in color of the amylose-iodine complex(blue) and the amylopectin-iodine complex (red/brown). Through ...
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25 views

What is meant by the term 'biosynthetic origin'?

I keep seeing the term biosynthetic origin used in medicinal related papers. Does it just refer to the biological precursors to the molecule? So, for example, the biosynthetic origin of Paclitaxel is ...
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1answer
89 views

Why is the formation of a peptide bond not spontaneous?

Why is the formation of a peptide bond from a carboxylic acid and amine not spontaneous? I'm not looking for the free energy calculation; I have it from several sources. I'm just asking for an ...
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1answer
2k views

Why do green bell peppers become bitter when cooked?

Why do green bell peppers taste sweet raw, but become bitter when cooked (steamed)? What chemical process is responsible for this? (I don't believe the temperatures are high enough for the Maillard ...
4
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0answers
27 views

Why can't NAD+ undergo single-electron reduction?

$\ce{FAD}$ can undergo single-electron reduction to form a stable radical, which can then be reduced again to $\ce{FADH2}$. This is supposedly possible due to resonance stability, where the unpaired ...
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2answers
50 views

How to run electrochemical tests on Microorganism (bacteria in a medium)?

I am trying to run some electrochemical tests(e.g.CV (Cyclic Voltammetry) & EIS (electrical impedance spectroscopy)) using half cell configuration on micro-organisms (e.g.bacteria). The bacteria ...
4
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1answer
45 views

Why is the hydrolysis of ATP to AMP more energetic than the hydrolysis of ATP to ADP?

I am confused as to why the hydrolysis of ATP to AMP and pyrophosphate is more energetic than hydrolysis to ADP and inorganic phosphate, especially since pyrophosphates are more unstable than ...
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How carbon nanotube sensors works?

How carbon nanotube sensors works? Is the protein (or chemical compound used as part of the sensor) placed inside the tube or where is it placed? and how is the technology used to place the protein ...
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33 views

Michaelis–Menten kinetics applied to a solution with two enzymes

Two enzymes are added to a solution containing a tow concentration of a substrate that they can both use. Which statement is correct? A. Both enzymes will use equal amounts of the substrate. B. ...
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1answer
86 views

How do enzymes affect a reaction's equilibrium?

I am not sure to understand something I read in a educational journal (1) Introduction Lets consider the following reversible enzyme-catalysed reversible reaction; $$E + S \leftrightharpoons ES \...
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4answers
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In sourdough bread baking what do the wild yeast and bacteria not eat during dough fermentation and why?

I bake bread using a sourdough starter. The starter is a culture of lactobacillus and some kind of yeast. They apparently eat the sugars or carbohydrates in the dough during fermentation but when I ...
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1answer
95 views

Does anyone know what program was used to make this molecular structure picture? [closed]

I am a quantum chemistry beginer, and this picture color scheme is classic. I wonder how to make such pictures by myself.
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1answer
58 views

How ph affects aesculune fluorescence?

I am facing a ween problem. I am trying to find out, how would look like the graph for fluroscence of aesculine (intensity of fluoroscence on Y axis and pH on X axis). I know, that increasing the pH ...
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1answer
613 views

Can sugars dissolve in liquid ammonia?

Can monosaccharides and disaccharides dissolve in liquid ammonia due to hydrogen bond formation? My rationale is that these sugars may be able to form hydrogen bond with ammonia ($\ce{NH3}$).
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2answers
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Biological activity of the isotopes of the same element

I have a question regarding biological activity of different isotopes of the same elements, notably $\ce{^206Pb}$ and $\ce{^208Pb}$. Lead is known to be toxic, such that it can replace calcium from ...
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Differences in AChE inhibition kinetics between paraoxon and methyl paraoxon

According to literature, dimethyl paraoxon has a reaction rate constant for the aging (spontaneous dealkylation) of acetylcholinesterase of $\pu{0.186 h-1}$, a spontaneous reactivation rate constant ...
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55 views

Haworth structures of sucrose and lactose

The haworth structures of lactose and sucrose is My question is regarding the glyosidic linkage, in lactose it is represented as a zig zag and in sucrose it is a "V". What does that mean. ...
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Differences in AChE inhibition kinetics between VX and VR

According to the referenced paper, VR has an AChE inhibition reaction rate constant almost 4 times that of VX. Interestingly, its reaction rate constant for aging of the enzyme is less than that of VX,...
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2answers
374 views

Why does denaturation of albumen protein cause pH of solution to increase?

I'm interested in the denaturation of proteins by alcohols, specifically by ethanol. I have devised a simple experiment in which I inject solutions of ethanol (of variable concentrations) into ...
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0answers
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Structure-Activity Relationship of Chlormephos and Parathion

According to the book "The Chemistry of Organophosphorus Pesticides", the insecticide Chlormephos (S-(chloromethyl) O,O-diethyl phosphorodithioate) has an oral LD50 in rats of 7 mg/k. ...
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0answers
26 views

Why is there a mirror image effect in the absorbance and fluorescence spectra?

I've read some answers online but I still can't seem to understand the mirror image effect. Why is the highest energy absorption (v" = 0 to v' = 4) the lowest energy fluorescence (v' = 4 to v&...
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0answers
29 views

How can DI water inhibit peroxidase activity?

I'm troubleshooting an IHC staining issue, and according to Thermo-Fischer's website, "Deionized water can sometimes contain peroxidase inhibitors that can significantly impair enzyme activity.&...
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28 views

Which electrons are in HOMO in a peptide bond?

We've recently studied the absorption of UV light by polypeptides, and found that the peptide bonds itself absorhs UV light at around 210nm. I'm confused about what feature causes this to happen.
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1answer
62 views

How do point mutations affect complementary base-pairing and widths of the nucleotide pairs?

Point mutations are divided into two categories: transitions and transversions. Since point mutations only occur during DNA replication (an integral process of both mitosis and meiosis), the mutated ...
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1answer
31 views

Depicting a mechanism of peptide bond formation with protonated and deprotonated amino group

I've noticed that some textbooks and video lectures use an amino acid wherein the amino group has two hydrogens, and others use an amino acid with three hydrogens in the amino group (in the formation ...
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1answer
48 views

Is selenite (hydrous calcium sulfate) dangerous when you grind it up?

I was wondering about the safety of a specific mineral, Selenite. From my research, I have read that selenite is the crystalline form of gypsum, which is hydrous calcium sulfate. I was wondering if I ...
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1answer
42 views

Entropy of Dissolution of Hydrocarbons

Here is what I think I know: The entropy of dissolution reactions increases as methylene groups are added (i.e. butanol has higher entropy of dissolution than propanol). Also, acyclic saturated ...
2
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0answers
29 views

Why is Chlormephos highly toxic despite requiring metabolic activation?

According to the book "The Chemistry of Organophosphorus Pesticides", the insecticide Chlormephos (S-(chloromethyl) O,O-diethyl phosphorodithioate) has an oral LD50 in rats of 7 mg/kg. For ...
5
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0answers
64 views

Are all protein tetramers considered to be “dimers of dimers”?

Is every tetramer thought to be a dimer of dimers? Because even if every subunit is unique in structure, it could be a heterodimer of heterodimers? Or is the term "dimer of dimers" reserved ...
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0answers
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Right conductivity of protein sample for Protein A purification of human IgG?

A sample from a cell culture has some IgG and this is to be purified using protein A chromatography. Based on the chromatography handbook from GE-Healthcare/Cytiva, the protein sample should have &...
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1answer
47 views

Can soap make an liposome around virsuses?

I have read that soap does not kill bacteria and viruses, but it rather removes them, that is, it strips them off the skin sort of speak by forming micelles around them, which are then rinsed off. But ...
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1answer
34 views

Why polysaccharides are not considered as lipids? [closed]

It is mentioned in my textbook that all lipids have one common trait which defines them :they are insoluble in water;they are hydropohic. I want to ask ,since polysaccharides are also insoluble in ...
6
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1answer
60 views

Does the mechanism of AChE inhibition by Isoparathion depend on chirality?

It is known that the inhibition of acetylcholinesterase by isomalathion can proceed either with diethyl succinate as the leaving group or thiomethyl, depending on the specific stereoisomer of ...
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1answer
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Is incineration of a solid fuel complete or incomplete?

If I have some solid material like biomass and incinerate it at 1000 Celsius degrees for 15 minutes in an oxidized atmosphere within an incineration oven. As an output it gives me ash. Is the ...

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