There are many excellent tools to predict protein properties that are only dependent on the sequence of a protein, such as protein molecular weight or protein pI (examples would be the pi_tool on uniprot or tools in the python pyteomics library (https://pyteomics.readthedocs.io/en/latest/).
Does anybody know of a tool that would calculate the buffering capacity of a concentrated protein or even peptide solution (in the absence of any externally added buffer salts)? I would even be interested in answers that would explain how this could be calculated.
Dear Achim Treumann
These articles and links might help, have a look:
1. https://pubs.rsc.org/en/content/articlelanding/2019/fo/c9fo01160a
2. https://www.tebu-bio.com/blog/how-to-choose-easily-the-perfect-buffer-to-purify-and-obtain-a-pure-stabilized-and-functional-protein/
3. https://aiche.onlinelibrary.wiley.com/doi/10.1002/btpr.1682
4. https://courses.lumenlearning.com/boundless-chemistry/chapter/buffer-solutions/
5. https://bitesizebio.com/7893/how-to-design-the-perfect-protein-purification-buffer/
6. https://www.nature.com/articles/s41598-021-86178-2
Kind Regards
Qamar Ul Islam
There are things available yes, a google search might be more efficient.
Thanks Qamar Ul Islam for the suggested paper - it was certainly interesting reading. By now I have found more papers that address the details of my question and I thought that it would be nice to share them.
The first one celebrates its 100th birthday at some stage this year and it provides the mathematical tool to perform the theoretical calculation of the buffering capacity beta :
- Van Slyke DD. On the measurement of buffer values and on the relationship of buffer value to the dissociation constant of the buffer and the concentration and the reaction of the buffer solution. J Biol Chem. 1922;52:525–570.
The second one is a more recent paper that directed me to the van Sykes equation and it explains how to apply it to intact proteins:
- Anne R. Karow, Sven Bahrenburg, and Patrick Garidel. Buffer Capacity of Biologics—From Buffer Salts to Buffering by Antibodies. Biotechnol. Prog., 2013, Vol. 29, No. 2
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