Protein Folding Problem

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amitgsir
amitgsir's picture
Protein Folding Problem

Hello,
I am working on two protein, eg. A and B. Both are having 10% sequence identity but the three dimentional structural similarity is about 90%.

It is expected that both these proteins may follow similar folding patterns irrespective of their amino acid sequences. Identifying those similar patterns that result from non-covalent interactions like hydrophobic interactions, electrostatic/ionic interactions, hydrogen bonding and disulphide bonds will be a critical study to understand the folding pathway of the proteins. Namely, the objective of this study is to understand what makes two different protein polypeptide chain fold to a similar structure.

amitgsir
amitgsir's picture
Hi,

Hi,
I was hoping to get a answer.

Anyway, I am thinking to use contact map method for it, to compare both the protein.

and also trying to validate the results using MDS for the proteins..

Is it ok..??

Rajiv Dua
Rajiv Dua's picture
Dear Amitgsir...First of try

Dear Amitgsir...First of try this with Microcal DSC analysis so as to know the type of bonding strength...and folding pattern as well u will be able to know the reveresible % of protien folding of each