Influence of structure properties on protein-protein interactions-QSAR modeling of changes in diffusion coefficients
| Autor: | Katharina Christin Bauer, Frank Hämmerling, Jörg Kittelmann, Cathrin Dürr, Jürgen Hubbuch, Fabian Görlich |
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| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
Quantitative structure–activity relationship Coefficient of determination Chemistry Bioengineering 02 engineering and technology Flory–Huggins solution theory 021001 nanoscience & nanotechnology Applied Microbiology and Biotechnology Hydrophobic effect 03 medical and health sciences Crystallography 030104 developmental biology Protein structure Virial coefficient Potential of mean force Diffusion (business) 0210 nano-technology Biological system Biotechnology |
| Zdroj: | Biotechnology and Bioengineering. 114:821-831 |
| ISSN: | 0006-3592 |
| DOI: | 10.1002/bit.26210 |
| Popis: | Information about protein-protein interactions provides valuable knowledge about the phase behavior of protein solutions during the biopharmaceutical production process. Up to date it is possible to capture their overall impact by an experimentally determined potential of mean force. For the description of this potential, the second virial coefficient B22, the diffusion interaction parameter kD, the storage modulus G', or the diffusion coefficient D is applied. In silico methods do not only have the potential to predict these parameters, but also to provide deeper understanding of the molecular origin of the protein-protein interactions by correlating the data to the protein's three-dimensional structure. This methodology furthermore allows a lower sample consumption and less experimental effort. Of all in silico methods, QSAR modeling, which correlates the properties of the molecule's structure with the experimental behavior, seems to be particularly suitable for this purpose. To verify this, the study reported here dealt with the determination of a QSAR model for the diffusion coefficient of proteins. This model consisted of diffusion coefficients for six different model proteins at various pH values and NaCl concentrations. The generated QSAR model showed a good correlation between experimental and predicted data with a coefficient of determination R2 = 0.9 and a good predictability for an external test set with R2 = 0.91. The information about the properties affecting protein-protein interactions present in solution was in agreement with experiment and theory. Furthermore, the model was able to give a more detailed picture of the protein properties influencing the diffusion coefficient and the acting protein-protein interactions. Biotechnol. Bioeng. 2017;114: 821-831. © 2016 Wiley Periodicals, Inc. |
| Databáze: | OpenAIRE |
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