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Drawing amino acids in certain PH's

Discussion of all aspects of biological molecules, biochemical processes and laboratory procedures in the field.

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Drawing amino acids in certain PH's

Postby ILoveISO » Tue Jan 25, 2011 7:39 am

for example if I was told to draw Val-Ser-Gly would I draw the three structures and connect them by peptide bonds? If so now the next step what would I do if I was told to draw it in PH = 5.7 and PH = 7.7? How would I show the differences?
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Postby JackBean » Tue Jan 25, 2011 8:09 am

it's pH :roll:

you need to find out the pKa of ionizable groups and if the pH is above the pKa, it will be deprotonized, if it's bellow, the group will be protonized.
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.
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Postby ILoveISO » Tue Jan 25, 2011 10:48 pm

So basically if it is protonized or not you would represent it in the drawing by either adding and H to the structure or removing it?
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Postby JackBean » Wed Jan 26, 2011 1:40 pm

yes, but of course only those groups, which can be de/protonized
http://www.biolib.cz/en/main/

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