The study of chemistry within the scope of biology: the compounds that occur and the reactions involving them in living organisms.

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62 views

How does CO₂ concentration affect photosynthesis?

I have heard the theory that with the increase of CO2 in the air, the speed of the photosynthesis would increase, thereby limiting the increase of CO2 levels. What is currently the rate limiting ...
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1answer
75 views

Questions regarding a particular paper

With respect to the following paper: Automated identification of protein-ligand interaction features using Inductive Logic Programming: a hexose binding case study I have a few questions: in page ...
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26 views

Does blood typing still provide a use for ancient tissue analysis?

Modern techniques. In recent years, DNA sequencing has become extremely cheap. This, compounded by the ability to PCR miniscule samples to viable samples for analysis, means that aDNA can be ...
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1answer
56 views

What is the difference between polar and charged amino acids?

Chemically polar amino acids have an uneven (AKA polar) distribution of electrons over their surface. Charged amino acids have a charged ion in their structure. This is probably where my knowledge ...
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1answer
30 views

What is meant by clonal isolates?

With respect to this website: http://horfdb.dfci.harvard.edu/ what does the term clonal isolates mean?
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117 views

Why is the brain dependent on glucose?

The strict dependence of the (human) brain on glucose has always been puzzling to me. While ketones can substitute for a portion of the brain's energy needs, it cannot substitute completely: blood ...
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49 views

Importance of organic chemistry in biochemistry/molecular biology? [closed]

I'm halfway through my biochemistry and molecular biology degree in Australia and i'm concerned about a lack of organic chemistry. My friends studying biochemistry back home in Canada take units upon ...
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2answers
112 views

Proteins that give color (without fluorescence)

Is there proteins that have strong color, that could be seen without the need of UV and with naked eyes (with white light) - in mammalian cells? Searching for reporter, something like GFP, but that ...
4
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2answers
59 views

A doctor might give bicarbonate (HCO₃¯) to a patient who is breathing very rapidly. What is the doctor assuming about the patient’s blood chemistry?

The answer is: The doctor is assuming that the rapid breathing is the body’s response to low blood pH. (Source: Campbell Biology) But this answer doesn't make sense. Why would the doctor give the ...
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2answers
74 views

Recommend good conversational books to learn about cell and developmental biology or biochemisty?

I'm an engineer by training and teaching myself the basics of cell and developmental biology. I'm using Scott F. Gilbert's Developmental Biology and Alberts' Essential Cell Biology right now, and they ...
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2answers
115 views

The effect on the efficacy and potency of a non-competetive antagonist binding to the active site of the receptor (dose-response curve)

According to the book "Principles of Pharmacology: The Pathophysiologic Basis of Drug Therapy" by Golan et al, non-competetive antagonists can bind to both the allosteric site and the active site. I ...
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1answer
44 views

Why in acute phorpyria? [closed]

I am having confusing about treatment of phorpyria . I read it somewhere that for treating phopyria hemin and glucose is given IV . Please give me an easy explanation of it
3
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1answer
112 views

D/L configuration for amino acids

Why would this be "L-cysteine"? This is taken from the answer key for my biochem final. From what I understand if the -NH3(+) is on the left then the alpha-amino acid is in the L-configuration. ...
2
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1answer
37 views

Question regarding an Escherichia coli reaction

With respect to this link http://www.biocyc.org/ECOLI/NEW-IMAGE?type=REACTION&object=RXN-14479 Here the enzyme is mentioned and the two reacting compounds. Now , my question is 1. When these ...
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2answers
94 views

Is cyanocobalamin toxic?

I see that cyanocobalamin is not naturally occurring, and is synthesized in vivo to methylcobalamin. As part of the synthetic pathway, cyanide is broken off. All opinions I can find are that this ...
3
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2answers
51 views

Energy transformations in chemiosmosis and ATP synthase

In terms of energy, how does chemiosmosis drive ATP synthase? How does electrical energy turn into mechanical energy and then into chemical energy? Would the movement of $H^+$ be considered passive ...
2
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1answer
26 views

Are more molecules of ADP than inorganic phosphate returned to the light reaction in photosynthesis?

During the dark reaction, 9 molecules of ATP are consumed for every 3 carbon dioxide molecules, yet only 6 molecules of inorganic phosphate ultimately leave the cycle. Does that mean that there is a ...
4
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1answer
145 views

When is Water Produced During Photosynthesis?

The formula for photosynthesis is: $$6CO_2+12H_2O \rightarrow C_6H_{12}O_6+6O_2+6H_2O$$ I can count the carbons, the waters on the reactant side, the oxygens, and the glucose, but I cannot seem to ...
3
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1answer
40 views

How Does NADPH Reduce 1,3-BPG?

If NADPH returns to being NADP+, then that means one proton and two electrons have been incorporated into 1,3-BPG. If only one proton and one electron were attached to the carbon in 1,3-BPG (removing ...
2
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1answer
24 views

Why are 2 electrons transported from photosystem II at the same time?

I only know that electrons are captured by the primary electron acceptor and then go through the electron transport chain, ultimately ending up at photosystem I. But why do 2 leave photosystem II in ...
3
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1answer
61 views

Why do some proteins “use” a beta barrel structure instead of alpha helices in transmembrane space?

Most proteins are fixed in the membrane by alpha helices. But some use beta barrels. Wikipedia describes beta barrels as used for porins, preprotein translocases, and lipocalins. To me, a coiled coil ...
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2answers
146 views

Do acetyl-CoA, acetyl-CoA carboxylase and acetyl-glutamate carry any charge?

Do the following compounds have any charge? If not, then why? If yes, is there any database that would give me this information if the compound is negatively or positively charged? The compounds are ...
5
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1answer
50 views

Do non-enzyme catalysed reaction pathways exist?

Can their be a kind of chemical reaction pathway in a cell, that is catalyzed or regulated but NOT necessarily by enzymes? I could not find anything on Google. I have almost no background in biology, ...
2
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1answer
39 views

What does it mean when a protein has a different excitation spectra than wildtype, but the same emission spectra?

We have a GFP mutant that displays a different excitation spectra with emission at 510nm than the WT. However, their emission profiles with excitation at 490nm are the same, and we do not observe the ...
3
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1answer
38 views

Applying kiwis on gelatin

Kiwis have the enzyme actinidain. This enzyme will break the peptide bonds from the gelatin. Making gelatin with raw kiwis will not work, because the peptide bonds in the gelatin will be broken down. ...
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1answer
34 views

What are the factors on which protein-protein interaction depend? [closed]

Does protein-protein interaction only happens when one of them is basic and the other acidic? Do protein interactions also depend on the protein structure? Are there more factors?
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1answer
37 views

Does creatine-phosphate (CP) supplementation regenerate NADH?

I have the following facts: It is possible to convert ATP <-> creatine vice-versa. (ref - non scientific) CP supplementation protects against metabolic syndrome. ref1 ref2 Fructose digestion ...
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2answers
59 views

Photolysis of Water?

In chemistry, I studied the decomposition of water as being $2H_2O_{(l)} \rightarrow 2H_{2(g)} + O_{2(g)}$. However, when water is split, the equation is $2H_2O_{(l)} \rightarrow 4H^+ + 4e^- ...
4
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1answer
59 views

Fats as energy source

As we know that the preferred source of energy for our body (source) are carbohydrates but heart muscle is an exception and need some explanation for this exception, that why the preferred source of ...
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0answers
71 views

SDS Laemmli Gel that did not solidify [closed]

In my lab class this week my partner and I were making a SDS-PAGE Laemmli Gel. We made the resolving gel solution which was made of 30% Acrylamide, DI water, 1.5 M Tris-HCL pH8.8, and 20% SDS. We ...
2
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1answer
195 views

Green Film Build up in Glass Water Bottle

So I have this Large Water Jug that I fill only water with. And this is the 2nd time there has been a layer of green film that builds up at the bottom of the bottle. I don't have any way of getting ...
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1answer
69 views

How is ATP involved in muscle contraction?

The sliding filament mechanism as explained by my text does not elaborate on how ATP is involved in the cross bridge binding and contraction process. How does muscle contraction utilize ATP? In my ...
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3answers
70 views

DIY storing family DNAs' samples for future uses (eg medical)

I have a question I could not get an understandable reply from Google and I am no expert in the matter, so my plead to you is if you could give me practical and relatively easy to follow advice. With ...
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1answer
63 views

Given an EC50 value, how do I reproduce the sigmoidal curve from which this was calculated?

All-trans retinoic acid (atRA) is a potent ligand for a nuclear receptor called retinoic acid receptor alpha (RARa). The concentration of atRA at which RARa is half maximal is 19nM. The dose-response ...
0
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1answer
37 views

ratio between heat transfer coefficient and thermal conductivity [closed]

Consider the Robin boundary condition for the diffusion/heat equation $\mathrm{u_t=a(t)u_{xx}+f(x,t)}$: $$\mathrm{-k(t)u_x(0,t)=h(t)u(0,t)}$$ or $$\mathrm{u_x(0,t)+\frac{h(t)}{k(t)}u(0,t)=0}$$ ...
6
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1answer
33 views

What Goes on in Photosystems at the Molecular/Atomic Level?

In light-harvesting complexes, how is the energy of a photon transferred from one pigment molecule to another? And in reaction-center complexes, how does the primary electron acceptor capture an ...
2
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1answer
73 views

How to define drug-resistant or -sensitive cell line when knowing the IC50 values?

I have got the IC50 data for a drug on different cell lines. How to define if the cell line is sensitive or resistant towards this drug? Could anyone tell me how to define this?
0
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1answer
22 views

Beta oxidation of saturated fats

In my text book there is an example of a 18 carbon long fat and it says that it can run 8 laps of oxidation. I don't understand why it doesn't run 9? 2 are removed each cycle? Thanks.
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0answers
38 views

Why doesn't the body optimize how many fatty acids it burns?

Ketone bodies are produced due to an excess of fatty acids being burned (accumulation of acetyl-CoA) so my question is: Why doesn't the body simply regulate how many fats it burns so it doesn't have ...
2
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1answer
34 views

How are ketone bodies used?

While searching for literature on ketone bodies, I can only seem to find how they are synthesized, but not how they are broken down. I'm looking for the series of events with enzyme names and ...
9
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1answer
334 views

Why gluconeogenesis?

It seems quite pointless to me. Why would I want to use energy to create a molecule that I can then use again for less energy? It seems only to serve as a complete waste of energy to me? Can someone ...
3
votes
1answer
34 views

NADH shuttles - Why cytosol?

Why is the malate-aspartate and the glycerol-3-phosphate shuttles located in the cytosol and intermembrane space? The krebs cycle happens in the matrix so why wouldn't they push electrons from the ...
4
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0answers
38 views

Cholesterol's role in lipid uptake [closed]

I'm studying the digestion of fats and I understand that our dietary fats mostly consist of triglycerides. We absorb the fats and eventually they end up in a muscle/adipose cell for storage (as ...
0
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0answers
21 views

Where does the oxygen and water produced from the decomposition of hydrogen peroxide by catalase enzyme go?

How are they disposed of by the body, or are they disposed of at all? Since our body needs water and oxygen anyway, I'm speculating that these "waste product" will be reused/recycled by the body in ...
5
votes
1answer
180 views

Where do amino acids get attached to tRNA and where is it synthesized?

Some very basic parts of transcription/translation seem to be left out in various literature. I can't find the answer to this anywhere: How exactly is tRNA synthesized? I realize that mRNA is ...
4
votes
1answer
174 views

Water soluble molecules

I believe I may have misunderstood water solubility this entire time. I assumed that water soluble meant that it would literally dissolve in water. It would break down into atoms. A sugar molecule ...
5
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1answer
110 views

Why does a “cascade” of events happen during signal transduction?

I've been watching some videos on signal transduction and it says that because there are enzymes being activated by the signal, then there is a "cascade" which happens afterwards...I don't understand ...
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2answers
51 views

What are the typical values of probabilities for nonspecific binding to an antibody?

I'm physicist by training, so please excuse me if I don't use the proper terminology. I think there is a way to make a sensor that detects if a single antibody has caught something from the flow. So ...
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1answer
39 views

Pasteurization and Bioavailability of Antioxidants in Beet Juice

What are the effects of pasteurization on the antioxidants found in beet juice ? Does the process render most of the beneficial nutrients (betaine) useless and make them unable for the body to process ...
1
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1answer
19 views

Ways to cause membrane damage to microalgae and yeast?

I am researching a way to monitor the membrane damage of cells. To do that I fist have to have reference points, namely, cells with damaged membranes. I am working with Dunalliela, Hematococcus (both ...