I want to estimate protein solubility based on sequence or 3d structure, especially changes due to mutations.
However, I'd like something where it's not necessary to run a molecular dynamics or something too computationally intensive since I want to apply this to hundreds or thousands of proteins.
Thanks!
You can use http://pepcalc.com/ to see if there is a good water solubility or http://services.mbi.ucla.edu/SER/ to see if there is signal peptide, or transmembrane regions that has low solubility. These softwares are great for primary structure analysis
Hope it will help
In my opinion, know the solubility of a protein in certain conditions, based only on its sequece, is nearly impossible. You can have some ideas of how polar are certain regions of the protein if there is a good prediction of the structure, but at the end you will have to purify your protein to know how its particullar behavior.
The good new is that nowadays you can clon and purify a protein in less than a week!
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