Phosphate binding in the active centre of tomato multifunctional nuclease TBN1 and analysis of superhelix formation by the enzyme
Language English Country United States Media print-electronic
Document type Journal Article, Research Support, Non-U.S. Gov't
PubMed
26527269
PubMed Central
PMC4631591
DOI
10.1107/s2053230x15018324
PII: S2053230X15018324
Knihovny.cz E-resources
- Keywords
- TBN1, superhelix, tomato multifunctional nuclease, type I nuclease,
- MeSH
- Endodeoxyribonucleases chemistry genetics metabolism MeSH
- Phosphates metabolism MeSH
- Crystallization MeSH
- Molecular Sequence Data MeSH
- Multienzyme Complexes chemistry genetics metabolism MeSH
- Plant Proteins chemistry genetics metabolism MeSH
- Protein Structure, Secondary MeSH
- Amino Acid Sequence MeSH
- Solanum lycopersicum enzymology genetics MeSH
- Binding Sites physiology MeSH
- Publication type
- Journal Article MeSH
- Research Support, Non-U.S. Gov't MeSH
- Names of Substances
- Endodeoxyribonucleases MeSH
- Phosphates MeSH
- Multienzyme Complexes MeSH
- Plant Proteins MeSH
- superhelical DNA endonuclease MeSH Browser
Tomato multifunctional nuclease TBN1 belongs to the type I nuclease family, which plays an important role in apoptotic processes and cell senescence in plants. The newly solved structure of the N211D mutant is reported. Although the main crystal-packing motif (the formation of superhelices) is conserved, the details differ among the known structures. A phosphate ion was localized in the active site of the enzyme. The binding of the surface loop to the active centre is stabilized by the phosphate ion, which correlates with the observed aggregation of TBN1 in phosphate buffer. The conserved binding of the surface loop to the active centre suggests biological relevance of the contact in a regulatory function or in the formation of oligomers.
Institute of Biotechnology CAS v v i Vídeňská 1083 142 20 Praha 4 Czech Republic
University of Chemistry and Technology Technická 5 166 28 Praha 6 Czech Republic
See more in PubMed
Antikainen, N., Monzingo, A., Franklin, C., Robertus, J. & Martin, S. (2003). Arch. Biochem. Biophys. 417, 81–86. PubMed
Chen, V. B., Arendall, W. B., Headd, J. J., Keedy, D. A., Immormino, R. M., Kapral, G. J., Murray, L. W., Richardson, J. S. & Richardson, D. C. (2010). Acta Cryst. D66, 12–21. PubMed PMC
DeLano, W. (2004). Abstr. Pap. Am. Chem. Soc. 228, 030-CHED.
Dohnálek, J., Koval’, T., Lipovová, P., Podzimek, T. & Matoušek, J. (2011). J. Synchrotron Rad. 18, 29–30. PubMed PMC
Emsley, P., Lohkamp, B., Scott, W. G. & Cowtan, K. (2010). Acta Cryst. D66, 486–501. PubMed PMC
Kabsch, W. (2010a). Acta Cryst. D66, 133–144. PubMed PMC
Kabsch, W. (2010b). Acta Cryst. D66, 125–132. PubMed PMC
Koval’, T., Lipovová, P., Podzimek, T., Matoušek, J., Dušková, J., Skálová, T., Štěpánková, A., Hašek, J. & Dohnálek, J. (2013). Acta Cryst. D69, 213–226. PubMed
Krissinel, E. & Henrick, K. (2007). J. Mol. Biol. 372, 774–797. PubMed
Lipovova, P., Podzimek, T., Orctova, L., Matousek, J., Pouckova, P., Soucek, J. & Matousek, J. (2008). Neoplasma, 55, 158–164. PubMed
Matoušek, J., Kozlová, P., Orctová, L., Schmitz, A., Pešina, K., Bannach, O., Diermann, N., Steger, G. & Riesner, D. (2007). Biol. Chem. 388, 1–13. PubMed
Matoušek, J., Podzimek, T., Poučková, P., Orctová, L., Souček, J., Škvor, J., Lipovová, P. & Matoušek, J. (2008). Anticancer Res. 28, 3399.
Matousek, J., Podzimek, T., Pouckova, P., Stehlik, J., Škvor, J., Lipovova, P. & Matousek, J. (2010). Neoplasma, 57, 339–348. PubMed
Matoušek, J., Podzimek, T., Poučková, P., Stehlík, J., Škvor, J., Souček, J. & Matoušek, J. (2009). Oncol. Res. 18, 163–171. PubMed
Mueller, U., Darowski, N., Fuchs, M. R., Förster, R., Hellmig, M., Paithankar, K. S., Pühringer, S., Steffien, M., Zocher, G. & Weiss, M. S. (2012). J. Synchrotron Rad. 19, 442–449. PubMed PMC
Murshudov, G. N., Skubák, P., Lebedev, A. A., Pannu, N. S., Steiner, R. A., Nicholls, R. A., Winn, M. D., Long, F. & Vagin, A. A. (2011). Acta Cryst. D67, 355–367. PubMed PMC
Podzimek, T., Matoušek, J., Lipovová, P., Poučková, P., Spiwok, V. & Šantrůček, J. (2011). Plant Sci. 180, 343–351. PubMed
Romier, C., Dominguez, R., Lahm, A., Dahl, O. & Suck, D. (1998). Proteins, 32, 414–424. PubMed
Vagin, A. & Teplyakov, A. (2010). Acta Cryst. D66, 22–25. PubMed
Winn, M. D. et al. (2011). Acta Cryst. D67, 235–242. PubMed
Yu, T.-F., Maestre-Reyna, M., Ko, C.-Y., Ko, T.-P., Sun, Y.-J., Lin, T.-Y., Shaw, J.-F. & Wang, A. H.-J. (2014). PLoS One, 9, e105821. PubMed PMC