Difference between revisions of "Team:Aalto-Helsinki/Modeling micelle"
m (first version of introduction text) |
m (text of lengths and constants) |
||
Line 6: | Line 6: | ||
<div class="inner-container"> | <div class="inner-container"> | ||
− | |||
− | |||
− | |||
<!-- Introduction --> | <!-- Introduction --> | ||
− | < | + | <h1> Introduction </h1> |
<p>--Picture of the pathway here, CAR, ADO and butyraldehyde highlighted to clarify what we are talking about.--</p> | <p>--Picture of the pathway here, CAR, ADO and butyraldehyde highlighted to clarify what we are talking about.--</p> | ||
Line 23: | Line 20: | ||
− | < | + | <h1>Geometrical approach</h1> |
+ | |||
+ | <p>The micelle is formed by amphiphilic proteins that have both hydrophilic and hydrophobic parts. At the end of hydrophilic part there is short protein, a linker that attaches CAR or ADO to the amphiphilic part. (--picture of micelle somewhere near!--)</p> | ||
+ | |||
+ | <p>(Here where we got amphiphilic proteins sizes.) The <a>linker (here link for more info about this. Structure and such, does lab have that somewhere?)</a> consists of eight amino acids, for which the maximum lengths are 3,8Å. From this we can calculate that at most the length of one linker is 2,8 nm. If the linker would form $\alpha$-helical structure, then the length for one peptide would be about 1,5 Å so the one linker would be 1,2 nm long. (we need some source for the Å-lengths) However, we can estimate that the linkers are straight, since when running the structure in <a href="http://mobyle.rpbs.univ-paris-diderot.fr">peptide structure prediction software</a> doesn't yield strong folding or helical structure. </p> | ||
− | <p> | + | <p>The mass of CAR is <a href = "http://www.uniprot.org/uniprot/B2HN69">127 797 DA</a> and the mass of ADO is <a href="http://www.rcsb.org/pdb/explore/explore.do?structureId=4KVS">27 569.15 Da</a>. Based on this information and <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3055910/">this paper</a> we can calculate that if the enzymes were spheres, their radiuses would be 3,5 nm for CAR and 2 nm for ADO. (do we need more info about these calculations here?)</p> |
− | < | + | <h1>Discussion</h1> |
<p>Here text about how we didn't take into account any forces and how this model could be improved.</p> | <p>Here text about how we didn't take into account any forces and how this model could be improved.</p> |
Revision as of 08:13, 29 July 2015