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Questions tagged [organic-chemistry]

Chemistry relating to carbon-containing compounds. Should relate to biology as opposed to being purely about chemistry.

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Do right-handed helices bind to right-handed helices, and vice versa?

I know that B-conformation DNA is a right-handed helix, and most proteins that form helices form right-handed, not left-handed, helices (1). Furthermore, "Many transcription factors have an alpha-...
OdinTheDO's user avatar
1 vote
0 answers
25 views

Which position do retro aldol reactions occur in (comparing glucose and fructose)?

Regarding glycolysis, my text states: What is the biochemical rationale for the isomerization of glucose 6-phosphate to fructose 6-phosphate and its subsequent phosphorylation to form fructose 1,6-...
TheAnonymous's user avatar
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1 answer
149 views

How is it known that there are only three macronutrients: proteins carbohydrates and lipids?

It is stated here that in human nutrition, micronutrients are nutrients required generally in less than 100 mg daily quantities whereas macronutrients are required in gram quantities. It is widely ...
imrobert's user avatar
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1 answer
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Plant growth regulators for Grape berry elongation?

I want to make a formulation for grape berry elongation, planning to use GA3, NATCA (N Acetyl Thiolidine Carboxylic Acid), IAA (Indole-3-acetic acid), IBA (Indole-3-butyric acid) What else can I use?...
Rajveer's user avatar
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0 answers
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Carbon dioxide concentration in alkaline media

I am running a batch experiment using penicillin bottles where I have bacteria growing for 21 days in a highly alkaline media (pH 10). I am measuring the CO2 and O2 content in the headspace over time, ...
Franco Grosso's user avatar
1 vote
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58 views

Question on protonation/deprotonation of amino acid side chains

I understand that actual pKa of amino acid side chains is greatly influenced by the surrounding environment. I am trying to deeply understand the equilibrium between protonated and deprotonated form ...
Science123's user avatar
1 vote
0 answers
338 views

What are major obstacles that OOL research still has to overcome in order to come to a full understanding of how life could have arisen from non-life? [closed]

Dr. James Tour recently uploaded a video titled Dr. James Tour vs Dave Farina | Are we clueless about the origin of life? #abiogenesis. The description in the video says: Join us for an exciting ...
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12 votes
1 answer
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Would fewer cows mean less methane emission?

Rotting grass produces the same amount of methane as cows that digest grass (see this source). So if cows did not eat the grass, it would still emit methane. Therefore, if there were fewer cows, would ...
Riemann's user avatar
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1 answer
725 views

Are DNA molecules negatively charged at low pH values?

We know, that for each monomer of DNA, phosphate groups are having -1 charge because one of the oxygen is negatively charged (2nd oxygen participates in the phosphodiester covalent bond), but isn't it ...
Lasha Bukhnikashvili's user avatar
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Does ellagic acid dissolved in DMSO react with Brain Heart Infusion media?

I dissolved 2mg of Ellagic acid in 500 microliter of DMSO. I used 100 microliters of this solution to test for antimicrobial susceptibility against E.faecalis by adding it to 100 microliters of BHI ...
Shreesha Padyana's user avatar
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What is mechanism of action of ellagic acid as an antimicrobial compound?

Ellagic acid (a polyphenol) works as an antimicrobial compound. But what is its mechanism of action? I found these 2 research papers related to this, however the mechanism of action is not clearly ...
Shreesha Padyana's user avatar
4 votes
1 answer
412 views

Why does the luminal test need hydrogen peroxide?

In the chemiluminescent reaction of Luminol in an aqueous solution, the luminol needs to react with molecular oxygen to produce a photon of blue light. In the technique, the hemoglobin of blood ...
Evamentality's user avatar
3 votes
1 answer
97 views

Is the formula of cyclic adenosine monophosphate (cAMP) $\ce{C_{10}H_{11}N_{5}O_{6}P}$ or $\ce{C_{10}H_{12}N_{5}O_{6}P}$? Does it matter?

For some reason, half the sites on the internet say that there are 12 hydrogen atoms in one molecule of cAMP, and the other half claim 11. Who is correct? Does a single, free, unbounded and ...
Kurt Hikes's user avatar
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70 views

Why can $\alpha$- and $\beta$-glucose molecules not link together?

My textbook states that for two glucose molecues to link together, they must be of the same form, i.e. they must both be either $\alpha$-glucose or $\beta$-glucose molecules. Why is that the case?
hm1912's user avatar
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2 answers
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Does baking soda interfere with digestion when cooked into food?

Baking soda is useful for tenderizing meats and leavening baked goods. In the case of meats, it allegedly breaks down proteins/amino acids. However, does this usage pose a risk to digestion? Could the ...
katie's user avatar
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2 votes
1 answer
147 views

Why is there no wavelength change in the hyperchromic shift in DNA?

From Wikipedia article on hyperchromicity (emphasis my own): "When the bases become unstacked, the wavelength of maximum absorbance does not change, but the amount absorbed increases by 37%.&...
Rusty's user avatar
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5 votes
1 answer
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Why is ammonia converted to urea rather than secreted in the urine?

Since ammonia is highly soluble in water, my senses keep telling me something like, "Just a little bit of water is enough to flush it, given that a lot of it would dissolve per liter of solvent&...
Diego Menezes Pamplona's user avatar
1 vote
1 answer
419 views

What is the minimum number of chemical elements required for life on earth? Does it vary between kingdoms?

As a non-biologist, I assume that there are certain elements that occur in all life forms as we know them. Examples might be carbon, hydrogen, oxygen and so forth. There are also elements that are ...
Araucaria's user avatar
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-4 votes
1 answer
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Biochemistry - Plastic eating microbes at home [closed]

Is it possible for me to locate, without too much difficulty, and culture, at home, a bacteria (like yeast) on plastic? I tried a similar process with yeast and I was able to culture it on extremely ...
Mikul Rai's user avatar
2 votes
0 answers
58 views

Why are disaccharides less reducing than monosaccharides?

My teacher told me the statement, but if both monosaccharide and disaccharides have a single free active group, how is this possible?
Newton's Apple's user avatar
2 votes
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What is the representation for Sulfur in organic matter?

We often represent organic matter with the following equation: $$ (CH_2O)_x(NH_3)_y(H_3PO_4)_z \tag{0} $$ For example, the organic matter with the Redfield ratio has the form of $(CH_2O)_{106}(NH_3)_{...
T X's user avatar
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1 vote
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Measuring the protein content using UV Vis

The experiment is to determine the protein content of the solution. I followed the procedure of the Bradford assay but the reagent needed is unavailable and so we use an alternative by using cold pure ...
unknown0000's user avatar
1 vote
0 answers
116 views

Can I use dATP instead of ATP (vice versa) for in vitro assay? [closed]

For example, polynucleotide synthesis reaction requires dATP which gives H on 3'end and synthesizes polynucleotide. For this reaction can I use ATP because I knew that ddNTPs are used so that ATP ...
mojopinos's user avatar
2 votes
1 answer
1k views

1% water solution of deoxycholic acid. How is it prepared? [closed]

According to Sigma, the solubility of deoxycholic acid is: 0.24 g/L in water at 15C According to the FDA, Kybella (trademark) is a 1% water solution of deoxycholic acid. How did they do this?
Alex's user avatar
  • 31
1 vote
0 answers
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Is there a chemical reaction that blocks two cysteines by reacting with a third molecule?

The idea is to block the two cysteines so they can't react in the future. We need the reaction to remove the -SH groups of the two cysteines, or modify them. Also important, the reaction should not ...
Antoine Roland's user avatar
1 vote
1 answer
115 views

Quantification of various amino acids from bacteria?

I would like to characterise how much of various (uncommon) cytosolic amino acids are produced in bacteria, and was wondering if there are good suggestions of how to go about doing this. I know that ...
CuriousTree's user avatar
0 votes
1 answer
254 views

Is there anyway from which we can measure the viscosity of honey using a refractometer?

Is it possible to use a refractometer to measure the viscosity of honey because as we know, a refractometer is used to measure moisture and therefore water influences the viscosity of honey so is ...
Mo Kamal's user avatar
5 votes
1 answer
396 views

Tryptophan side-chain structure, how should it be orientated?

I would like some clarification on whether it matters where the NH and double bond are placed in these two structures of tryptophan (W) that I drew. I marked the right side as correct and the left ...
user3665690's user avatar
4 votes
1 answer
1k views

Why do we need to amplify DNA sequences?

I am learning about biotechnology. I have no education in biology or chemistry and am simply interested in the subject of biotechnology. I am wondering why we need to have multiple copies of a piece ...
ErikTang's user avatar
2 votes
0 answers
162 views

Living potato clock? [duplicate]

Could a potato stay alive and power a clock while growing in the ground? I know how a potato clock works as a electrochemical cell and involves chemistry, but I am only interested in a growing ...
Muze's user avatar
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4 votes
1 answer
73 views

Is studying chemical and physical properties of chemical substances that make up organisms really a task of molecular biology?

I have read in a high school textbook that (translated into English by myself): "Branch of science that concerns itself with studying chemical and physical properties of substances that make up ...
fdgsdg's user avatar
  • 53
0 votes
1 answer
564 views

Why does decomposing matter emit a bad smell?

Often, when matter decomposes (such as a rotting carcass), a nasty smell is emitted. After speaking to my teacher, it was likely due to the nitrogen compounds that leads to the bad smell. Is this so?...
QuIcKmAtHs's user avatar
1 vote
0 answers
31 views

Is there a organ or type of cell that makes Nagalase?

Schindler disease / Kanzaki disease is being described as alpha-N-acetylgalactosaminidase deficiency. So then, which organ or cell(s) produce this alpha-N-acetylgalactosaminidase (Nagalase) ?
Neel's user avatar
  • 125
1 vote
1 answer
227 views

Glycosidic bonds

For the glycosidic bond in maltose, why is the glycosidic bond formed between hydroxyl group on C1 in 1 glucose molecule and hydroxyl group on C4 of the other glucose molecule? Why not between, say, ...
John's user avatar
  • 11
1 vote
1 answer
365 views

How do alcohols and aldehydes destroy the plasma membranes of bacteria?

I am interested in knowing why a 60-80% solution of alcohol (usually ethanol or 2-propanol) can effectively kill vegetative bacteria and fungi. I know that it can coagulate essential proteins like ...
Navy_Colors's user avatar
1 vote
0 answers
36 views

Amino acid structural charges [closed]

Hello, I was wondering if i could get an explanation as to why the charge of this peptide is +2 and -2. How do you figure this out? What is it based on exactly? Thank you
user36408's user avatar
3 votes
0 answers
77 views

Preparation of dihydroxyacetone phosphate from glycerine by fermentation

I read on Wikipedia that dihydroxyacetone (DHA) can be obtained from fermentation of glycerin. I would like to obtain dihydydroxyacetone phosphate (DHAP) for a science experiment but, since I'm 15, I ...
4D Neuron's user avatar
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1 vote
0 answers
43 views

What chemicals will kill P1 Phage but not E. coli?

I'm working with E. coli and P1 Phage. I'm wondering if there is some chemical agent that will kill or disable P1 but leave E. coli untouched? It is not enough to just prevent infection. It must ...
Derek Ping's user avatar
0 votes
1 answer
460 views

Is DEET (as in the mosquito repellent), a substituted phenethylamine? [closed]

Am I correct to say that N,N-diethyl-meta-toluamide (DEET) is a part of the phenethylamine class? It's structure meets the requirements to be a phenythylamine, however, I was not able to find anywhere ...
kirill2485's user avatar
1 vote
0 answers
274 views

Why does the brain produce cannabinoids?

I've been reading lately about the brain producing cannabinoids. I was introduced to this idea by the Wim Hof Method which has been shown to increase the amount of cannabinoids (that is, compounds ...
Charlie's user avatar
  • 462
2 votes
1 answer
610 views

Can emulsion test be used to detect phospholipids?

The emulsion test- causes a white cloudy colour when lipid is dissolved in ethanol and then water added. Can this be used for phospholipids? I am aware that they are polar so may arrange in a ...
Laura kirkpatrick's user avatar
4 votes
2 answers
3k views

Text Book Recommendation: Cell & Molecular Biology + Organic Chemistry

I am studying undergraduate biology course and I have cell biology and molecular biology in my next semester. Our college recommends three books : Cooper, Lodish & Bruce Alberts. It would be ...
Anindya's user avatar
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2 votes
0 answers
90 views

Why did plants evolve to use opioids? [closed]

I'm reading about medicine and specifically opioids. There seems to be a wide variety of forms of these chemicals, I'm curious as to what purpose these serve in these respective plants, and why they ...
mcchucklezz's user avatar
1 vote
0 answers
46 views

What will CD spectroscopy show when L- and D- forms of proteins are mixed?

What will happen if equimolar concentration of L- and D- forms of proteins are mixed and we take the circular dichroism reading? Will the positive and negative ellipticity cancel each other out or ...
CHANDA7's user avatar
  • 21
2 votes
1 answer
201 views

What are some uses of oxidative/reductive power inside cells? [closed]

I know respiration and photosynthesis are based on oxidation and reduction, and the formation of NADH and NADPH in them is very important for many cell processes. I know that NADPH, for example, is ...
Meep's user avatar
  • 2,969
4 votes
1 answer
1k views

Glycogen vs cellulose-curvature of glycogen molecule?

I was wondering if anyone knows what the degree of curvature is or bond angle between the $\alpha$ glucose molecules in glycogen is. I know that glycogen/amylose/amylopectin have a general curved ...
Meep's user avatar
  • 2,969
1 vote
1 answer
64 views

Can the dietary fibres as chemical compounds be regarded as polymers? [closed]

At the level of molecular structure, can the dietary fibres be regarded as polymers?
SRS's user avatar
  • 111
1 vote
1 answer
88 views

Does mechanotransduction of cells play a role in the biocompatibility of titanium?

What exactly is mechanotransduction as the information varies between sources. Some sources indicate that mechanotransduction is the underlying principle where cells pull on the surface they grow on ...
luyangl's user avatar
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5 votes
1 answer
572 views

What is a lethal dose of THC?

With the oil form of THC being stronger then ever. What would happen if one was to take a stomach full of THC oil?
Muze's user avatar
  • 1
5 votes
3 answers
302 views

Wax layer destruction from seed coats

I'm working with some orchid species, and i encounter a specific issue. Some of those species deposits upon their seed coat a wax layer. This layer makes seeds behave in a very hydrophobic way. You ...
F.N's user avatar
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