Biopolymers consisting of amino acids that fold into 3D shapes and perform a large number of functions in living organisms.

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Statistical Coupling Analysis (SCA) to identify coevolved residues: use of ICA

We've begun to try out the SCA Matlab toolbox (latest version) downloaded from Dr. Rama Ranganathan's website, and, following the included tutorials, would like to apply it to our protein family. The ...
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20 views

How to remove bad lanes in ImageJ Westernblot analysis

I use ImageJ to do an analysis of a Westernblot Image. If everything goes as wanted the workflow is fine. But if I do something wrong creating a lane there is no undo for a lane and also no way to ...
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41 views

Circular mRNA to produce long proteins

Ribosomes can read mRNA and produce proteins, if we somehow make a circular mRNA for the ribosome to bind onto, it will make infinitely long "proteins", (since ribosomes can make very big proteins, I ...
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41 views

Removal of the Initial Methionine in Venus for FRET

I'm working on building some FRET reporters. In addition to a cleavage site (of varying composition from 15-18AA), a 1 AA linker, I'm using Venus and Cerulean. Initially I was worried that 18AA ...
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46 views

How to use mechanical microstrainer to extract tissue proteins from human?

Background: There are many methods to extract proteins form human tissues out there. The majority of them use an extraction buffer containing variable concentrations of detergents and protease ...
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38 views

Endocannabinoid Transporters - which ones are Likely to Exist and what is the Evidence for their Respective Existence?

Endocananbinoid = Endogenous Cannabinoid or CB1 and CB2 ligands. I'm asking which endocannabinoid transporters exist and could the one answering show all the evidence for the existence of the ...
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194 views

What specifically allows alpha-complementation in beta-galactosidase?

I'm familiar with the use of alpha-complementation of beta-galactosidase with the pUC alpha-peptide and the M15 lacZ gene product, and would like to hypothetically apply alpha-complementation in other ...
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57 views

Are there examples of PTMs that add different chemical groups (and mass) to different amino acids?

I'm talking about this type of post-translational modifications. What I'm interested in is not whether some modifications can only occur on specific amino acids (that's clear), but if the nomenclature ...
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19 views

Can a protein be present in a protein-based complex but not important for the function of the complex

Suppose protein A is present in a protein complex ABC. Is it possible that protein A is actually is not important for the function of protein complex ABC? Or put alternatively, can a protein X not ...
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23 views

Planar circular DNA and protein

I am trying to develop a planar (two dimensional) lattice based framework to simulate ring (circular) DNA and proteins. To verify my model, I need to simulate real DNA and proteins. The base idea for ...
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37 views

Ferredoxin synthesis pathways

I have been thinking about some alternative CO2 fixation pathways. As almost all of them include ferredoxin reduction I started to wonder where does the ferredoxin comes from. I could not find any of ...
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25 views

Where exactly is NMDA Glutamate, Glycine, Allosteric and Channel blocker location?

I am reading about NMDA. I ran a active site location finder on NMDA1 which is Uniprot Q05586.1 and it said the highest quality binding site was near residues ANYSIM. However there are so many options ...
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13 views

histamine inter-cellular and cytoplasmic binding site

I noticed that HRH (histamine receptor) has an inter-cellular and cytoplasmic binding site of anti-histamines which are equal in binding energy. Does anyone know what is the function of the well ...
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39 views

Which mass spectrometry database search algorithms include the fragment mass accuracy in the calculation of protein scores?

E.g. in a MASCOT search, the accuracy of the fragment ions in a ms/ms spectrum does not have any influence on the scores of identified proteins (unless the fragment ions are out of the set ms/ms ...
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34 views

Functional modules in viruses

I am interested in protein function within viruses, especially on how they work together. Is there any study about grouping proteins in viruses as functional modules?
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19 views

activate a drug using deoxycytidine kinase in vitro

I need to activate a drug similar to the way it is activated in the cell. My set of molecules called Nucleoside analog reverse-transcriptase inhibitors (NARTIs or NRTIs) need three phosphate groups to ...
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10 views

To decrease the amount of proteins in the lymphatic drainage for short term

I am looking for some mechanism which can decrease the amount of proteins in the lymphatic drainage only for short term. Assume there is no flow between capillaries and lymphatic system because the ...
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21 views

What is the distribution of agent on plasma proteins in ECF?

I am studying Montelukast here: Montelukast is more than 99% bound to plasma proteins. The steady state volume of distribution of montelukast averages 8 to 11 liters. Studies in rats with ...
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14 views

What are conditions for a membrane to be settled ? (centrifugation)

The cell membranes have 60% of proteins and 40% of lipids. And we know that medium density of proteins is 1,2 g/cm3 and the medium density of lipids is 0.92 g/cm3. How can we calculate the medium ...
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32 views

What percentage of possible proteins has been tested by human brain evolution?

When the human human brain is discussed, I frequently hear an argument that goes like this "If there was a simple chemical solution for people to be smarter, nature would've already found it". I'm ...
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31 views

Ovalbumin Detection

Is there a practical way to detect whether or not a baked good has egg in it? I'm thinking of something that can be brushed on to evolve a color change. Any help is appreciated.