Publications of the Perica Group

ZORA Publication List

Publications

• 2024

  • Notbohm, J., & Perica, T. (2024). Biochemistry and genetics are coming together to improve our understanding of genotype to phenotype relationships Current Opinion in Structural Biology, 89, 102952. https://doi.org/10.1016/j.sbi.2024.102952

• 2023

  • Mathy, C. J. P., Mishra, P., Flynn, J. M., Perica, T., Mavor, D., Bolon, D. N. A., & Kortemme, T. (2023). A complete allosteric map of a GTPase switch in its native cellular network Cell Systems, 14, 237-246.e7. https://doi.org/10.1016/j.cels.2023.01.003

• 2021

  • Perica, T., Mathy, C. J. P., Xu, J., Jang, G. Μ., Zhang, Y., Kaake, R., Ollikainen, N., Braberg, H., Swaney, D. L., Lambright, D. G., Kelly, M. J. S., Krogan, N. J., & Kortemme, T. (2021). Systems-level effects of allosteric perturbations to a model molecular switch Nature, 599, 152–157. https://doi.org/10.1038/s41586-021-03982-6

• 2014

  • Perica, T., Kondo, Y., Tiwari, S. P., McLaughlin, S. H., Kemplen, K. R., Zhang, X., Steward, A., Reuter, N., Clarke, J., & Teichmann, S. A. (2014). Evolution of oligomeric state through allosteric pathways that mimic ligand binding Science, 346, 1254346. https://doi.org/10.1126/science.1254346

• 2013

  • Zhang, X., Perica, T., & Teichmann, S. A. (2013). Evolution of protein structures and interactions from the perspective of residue contact networks Current Opinion in Structural Biology, 23, 954–963. https://doi.org/10.1016/j.sbi.2013.07.004
  • Roller, M., Lucić, V., Nagy, I., Perica, T., & Vlahovicek, K. (2013). Environmental shaping of codon usage and functional adaptation across microbial communities Nucleic Acids Research, 41, 8842–8852. https://doi.org/10.1093/nar/gkt673
  • Marsh, J. A., Hernández, H., Hall, Z., Ahnert, S. E., Perica, T., Robinson, C. V., & Teichmann, S. A. (2013). Protein complexes are under evolutionary selection to assemble via ordered pathways Cell, 153, 461–470. https://doi.org/10.1016/j.cell.2013.02.044

• 2012

  • Perica, T., Marsh, J. A., Sousa, F. L., Natan, E., Colwell, L. J., Ahnert, S. E., & Teichmann, S. A. (2012). The emergence of protein complexes: quaternary structure, dynamics and allostery. Colworth Medal Lecture Biochemical Society Transactions, 40, 475–491. https://doi.org/10.1042/BST20120056
  • Liberles, D. A., Teichmann, S. A., Bahar, I., Bastolla, U., Bloom, J., Bornberg-Bauer, E., Colwell, L. J., de Koning, A. P. J., Dokholyan, N. V., Echave, J., Elofsson, A., Gerloff, D. L., Goldstein, R. A., Grahnen, J. A., Holder, M. T., Lakner, C., Lartillot, N., Lovell, S. C., Naylor, G., … et al. (2012). The interface of protein structure, protein biophysics, and molecular evolution Protein Science, 21, 769–785. https://doi.org/10.1002/pro.2071
  • Perica, T., Chothia, C., & Teichmann, S. A. (2012). Evolution of oligomeric state through geometric coupling of protein interfaces Proceedings of the National Academy of Sciences of the United States of America, 109, 8127–8132. https://doi.org/10.1073/pnas.1120028109

• 2010

  • Perica, T., & Chothia, C. (2010). Ubiquitin--molecular mechanisms for recognition of different structures Current Opinion in Structural Biology, 20, 367–376. https://doi.org/10.1016/j.sbi.2010.03.007

• 2008

  • Crosetto, N., Bienko, M., Hibbert, R. G., Perica, T., Ambrogio, C., Kensche, T., Hofmann, K., Sixma, T. K., & Dikic, I. (2008). Human Wrnip1 is localized in replication factories in a ubiquitin-binding zinc finger-dependent manner Journal of Biological Chemistry, 283, 35173–35185. https://doi.org/10.1074/jbc.M803219200