Questions tagged [biochemistry]

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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20 views

Coagulation of protiens of different products

Protein of egg coagulates on 60 degree but proteins of milk do not coagulate at high temperatures..why? What is the main reason behind all this?
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Theoretical basis for amphetamine salt combo(Adderall) vs Dextroamphetamine

After re-reading the help questions I think this belongs here as I am more interested in the biochemical motivations rather than any medical query or advice(but may also fit Chemistry SE). So from ...
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42 views

Ligand-binding assays: IC50, EC50 and Kd

I am reviewing several MHC-peptide binding affinity predictors trained on IEDB data. Quantitative records for MHC class I allotypes come from a lot of different assays and, by extension, have ...
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25 views

How are humanized antibodies made?

What kind of antigen is used to provoke/induce an immune response if you are trying to make therapeutic humanized antibodies for cancer and alzheimer's disease? For example, if you wanted to make an ...
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50 views

What enzyme or bacteria could dissolve plastic?

What enzyme or bacteria could dissolve plastic aside from acetone? Preferably, low-cost and environmentally friendly. Any suggestions would be helpful. I'm targeting for thin plastic (low-density ...
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27 views

Biochemistry of pleasure of/desire for physical exercise in mammalians and humans?

Are there some known biochemical mechanisms, that induces desire for/pleasure of physical exercise in mammalians and humans? I have heard, that horses can not live without physical exercise and they ...
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30 views

How to troubleshoot in vitro formaldehyde fixation for nucleosomes?

For an experiment, I am trying to fix the mononucleosomes (100ng) using formaldehyde as crosslinking agent in HEPES buffer. I have been using 2% formaldehyde in a reaction buffer containing 1mM EDTA, ...
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22 views

Can a lentivirus expressed protein that is undetectable by western blot be detected by BioID?

Cloned a single herpesviral gene into pCDH-EF!-GFP and see phenotypic effect on cells of interest and viral gene transcripts BUT unable to detect ANY protein using HRP boosted western blot. Even with ...
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76 views

Does cat urine really fluoresce? If so, why?

I temporarily got caught in the Sad and Useless website, and found Science is Fun. Most of the claims seem plausible, but I can't guess why cat urine would fluoresce. Comments have directed me to ...
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68 views

Can something cause both breaks and cross-links in DNA?

A double strand break in DNA is exactly that: the strands of DNA are severed. A cross-linkage occurs when something forms a covalent bond between two nucleotides in DNA. However, is it possible for ...
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62 views

What is the difference among biochemistry, molecular biology, molecular genetics and structural biology?

I have never heard of straigthforward definitions of these fields in my college lectures, and the Internet searches were not very helpful. However, from what I have learned at different subjects, this ...
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29 views

Intein Splicing

Currently I am trying to read and understand this paper on intein splicing. https://sci-hub.tw/https://www.ncbi.nlm.nih.gov/pubmed/22001202 However, I'm a little confused with Figure 4. Why do the ...
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11 views

Rhodamine 123 Staining Function

How does Rhodamine 123 act as a probe for Mitochondrial Staining? What is the Exact Biochemical Basis? and can it Stain Chloroplast as well? Thanks in Advance
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84 views

The effect of salt, pH and temperature to the salivary amylase

If I prepare the following set of tests, incubate for 15 mins, then add 2-3 drops of iodine solution to each test tube: Salt test (1ml starch solution + 0.5 ml enzyme + 1ml 1M NaCl, incubate at 37 oC ...
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21 views

Can the heart and other muscles function without creatine/phosphocreatine?

Skeletal muscles in the body have a small reserve of ATP. During the first few seconds after contraction, phosphocreatine is used by the enzyme creatine kinase in order to phosphorylate ADP to ATP ...
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27 views

How to recreate bioluminescence in a lab?

I have several mg/mL of D-luciferin, luciferase (firefly), ATP solution (25 mmol) and MgSO4 (for the mg2+ ions). The experiment has to be done in cuvettes of 2,5 mL (if I get any results, it will be ...
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82 views

Does our brain use up more ATP after smoking cannabis?

kind of an amateur here. If the firing of the neurons' signals uses up some ATP, and smoking cannabis makes them fire off more quickly, do our brains use up more ATP to sustain that rapid firing?
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What proteins are assisted by chaperone folding?

I've been looking into a lot of papers, and most say that chaperones assisted in the folding of misfolded proteins, or Ubiquitin markers aggregates for degradation by the proteasome. Or it will say ...
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87 views

Chemical composition of human nucleoplasm?

I'm working on a computer visualisation of the inside of a human cell nucleus (embryonic stem cell for now if it makes a difference) and want a good approximation of the chemical composition of the ...
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23 views

Naming of Secondary Structure Elements

I have 2 questions regarding the naming of secondary structure elements ($\alpha$-helix and $\beta$-sheets), like helix C or sheet 2, which are often used in publications. Example protein: CYP1A2 ...
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11 views

Conversion of 2E trans-2-enoyl CoA to 3E trans-2-enoyl CoA

I am working on a project that aims to synthesize a particular molecule from a purely synthetic route, in doing so I am attempting to create a strain of e.coli which would be able to use its trans ...
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20 views

Is there a software simulator for monomeric formation, a la Miller-Urey?

At the moment, does any widely-available software exist for small-scale, programmable simulation of monomeric formation in specific conditions? Could one, for instance, recreate the Miller-Urey ...
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101 views

What happens to Bacterial Cells stored at 4 degrees?

4C is when water is most dense and is not so low as to cause ice crystal formation. For short term storage bacterial cultures are often simply kept in a fridge at 4C. I guess that this significantly ...
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46 views

plant uptake of large molecules

I have read several studies concluding that plants can indeed take up molecules with a molecular weight larger than 390 g/mol. Does this mean plants do also take up large molecules like hormones if ...
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Why does hydroxylation of fatty acids occur in the middle of the acyl chain and increase fluidity?

I wanted to check and see why a) hydroxylation of fatty acids is most likely to occur in the middle of the acyl chain and b) why that increases fluidity. If our goal is to increase fluidity, then by ...
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15 views

What is the composition of a standard diluent buffer in a leptin ELISA kit?

I am trying to find the composition of the diluent buffer used for the dilution of a human leptin stock to be used in an ELISA assay. The manufacturer of the kit (https://www.thermofisher.com/elisa/...
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Coacervater were more like Viruses or Cells?

The answer considers them as first formed living cells as they were precursor of life. But they had no lipid bilayer nor any cellular organization, shouldnt they be more like Viruses ,or like Prions ...
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112 views

How does the body differentiate between sources of good and bad cholesterol?

I keep hearing "good cholesterol, bad cholesterol" everywhere, and how certain food sources of cholesterol raise LDL and certain other raise HDL. I don't understand how any food can increase ...
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49 views

Why is plasma glucose concentration not double that of whole blood?

It is known that the concentration of plasma glucose is 12% higher than that of whole blood. But since 45-50% of whole blood is red blood cells, shouldn't the plasma glucose be almost double — since ...
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33 views

What is the difference between GFP and rhodopsin?

GFP and Rhodopsin are both fluorescent proteins. What is the main difference between GFP and Rhodopsin in terms of how they work? I know that their excitation and emission wavelengths are different, ...
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71 views

What is the most readily usable form of nutrients/energy source for heterotrophic microorganism in general?

Consider a nutritious mixture containing abundant soluble sugars, soluble lipids and soluble protein etc. Would heterotrophic microbes preferentially use sugars first > lipids > proteins > insoluble ...
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118 views

MOPS Media Recipe Protocol - Well Defined

I am trying to find a clear protocol for making MOPS media. However, when looking online, I am finding that this media is loosely defined and I can not find a good protocol. (I have been looking for a ...
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47 views

What biproducts do vinegar eels produce?

What chemicals, acids, gases or other biproducts do vinegar eels (Turbatrix aceti) produce (in raw vinegar and/or in the vinegar-creation process, which process may have them in environments including ...
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206 views

Is dietary fat directly stored in adipose tissue or is it immediately metabolized?

I know that fat goes to adipose tissue and even sugar gets converted to fat and goes to adipose tissue, but what happens to fat (unsalted cow milk butter) I just ate? Will it give me energy now, or ...
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156 views

Diazepam with Aluminum Hydroxide

Some common medicinal preparations contain diazepam with aluminium Hydroxide, there may be other compounds [e.g. magnesium trisilicate and polydimethylsiloxane with Aluminum Hydroxide and Diazepam as ...
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98 views

peritoneal dialysis Vs Hemodialysis?

Their are basically two types of dialysis: 1.peritoneal dialysis 2.hemodialysis, My Question is Why the peritoneal dialysis needs to be carried out on everyday BUT hemodialysis is carried out on only ...
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33 views

Amount of Na+ needed to be transfered in order to depolarize the membrane?

I found out that the number of $Na^+$ ions that is needed to be transfered across the membrane to make it depolarized is a small number. In what way its proved? (Goldman equation maybe?)
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111 views

Does the source of caffeine affect the biological impact?

I've recently decided to give up my morning coffee in lieu of a caffeine pill. Both are around 200mg (my Tim Horton's XL 4x4 was 240 mg of caffeine) of caffeine. We were talking about the various ...
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107 views

Determination of Ageing by ECG inclusions/exclusions?

I am studying ageing and considering ECG signal because of its high sensitivity in theory (escardio). Some factors Sensitivity Gender Medical treatment ... Benchmark: RTG dental + wrist uncertainty ...
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46 views

Avoid Blood lyse color remain in DNA extraction

I tryed several times to extract DNA from freezed blood sample whit Qiagene kit but it gave very small amount of product due to good purity then I try extract manually by using CTAB PVP method and ...
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124 views

Root etiology of non-pituitary low T4 and low TSH

Please note: I'd like to preface this question by stating that this is neither homework nor me seeking medical advice. I am simply trying to understand the biological, physiological root etiology ...
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49 views

Consumption of different type of energy when one is inactive

I'm wonder if there is any study done on this and what are the results? how much of each type of energy one's body(healthy normal person) uses when inactive(seating down) I know there are alot of ...
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25 views

Size of the glycan chain in a glycosylated protein

I would like to know where I can find the (experimental/estimated) distribution of glycan sizes attached to proteins.
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523 views

What is the probe that absorbs at 450nm in the presence of NADH in this assay?

The colorimetric assays by Biovision and Sigma Aldrich seem to utilise a probe that binds to or reacts with NADH in order to cause absorbance at 450nm which can then be quantified by a ...
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can magnesium bicarbonate be absorbed in the mouth?

Can Magnesium Bicarbonate be absorbed in the mouth?" Magnesium Bicarbonate occurs naturally in some mineral waters.
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68 views

Is α-keratin a fully functional protein?

Is α-keratin before it coils with another polypeptide, makes chains, and build intermediate filaments a fully functional protein? I mean, is the single monomer of α-keratin a protein or does it have ...
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what happens when you put enhancer and caat box in prokaryotes

what happens when you put enhancer and caat box in prokaryotes
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458 views

dNTP concentration for reverse transcription from RNA to cDNA

Does it affect the results if I use the half of dNTP amount in a reaction that it says in my protocol? I usually use 4 microlitres per reaction and this time I did a mistake and I used 2. The final ...
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59 views

Is it possible to stop more/extra fat from being stored in the body?

I don't mean simply by restricting eating or upping the activities, but a way to basically stop the body from adding more fat on itself down on the bio level. For example, I'm not too knowledgeable on ...
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103 views

Difference between cerebroside and globoside

I have a general idea about their difference that cerebrosides have a single sugar while globosides have more than one sugars. This is the structure of a ceramide (syphingosine and a fatty acid ...