You can also see my publications at my Google Scholar profile.
* Corresponding author / bold: Ochi lab team members
Carden, S., Vitiello, E., e Silva, I. R., Holder, J., Quarantotti, V., Kishore, K, Franklin, V. N. R., D'Santos, C., Ochi, T.*, van Breugel, M and Gergely F. Proteomic profiling of centrosomes across multiple cell and tissue types by a new affinity capture method. Accepted.
Goff, N. J., Brenière, M., Buehl, C. J., de Melo, A. J., Huskova, H., Ochi, T., Blundell, T. L., Mao, W., Yu, K., Modesti, M. and Meek, K. Catalytically inactive DNA ligase IV promotes DNA repair in living cellsNucleic Acids Research 50, 11058-11071.
Ochi, T.* Cartwheels create symmetry and asymmetry. Structure 30, 655-657.
Ochi, T.*, Quarantotti, V., Lin, H., Jullien, J., Boselli F., Barnabas, D., Silve, I. R., Johnson, C., McLaughlin, S., Feund, S., Blackford, A., Kimata, Y., Goldstein R. E., Jackson, S. P., Blundell, T. L., Dutcher, S. K., Gergely, F., and Breugel, M. V. CCDC61/VFL3 is a paralog of SAS6 and promotes ciliary functions. Structure 28, 674-689.
Wu, Q., Liang, S., Ochi, T., Chirgadze, D. Y., Huiskonen, J. T. and Blundell, T. L. Understanding the structure and role of DNA-PK in NHEJ: How X-ray diffraction and cryo-EM contribute in complementary ways. Progress in biophysics and molecular biology 147, 26-32.
Wang, J. L., Duboc, C., Wu, Q., Ochi, T., Liang, S., Tsutakawa, S. E., Lees-Miller, S. P., Nadal, M. Tainer, J. A., Blundell, T. L., and Strick, T. R. Dissection of DNA double-strand-break repair using novel single-molecule forceps. Nature Structural & Molecular Biology 25, 482-487.
Liang, S., Esswein, S. R., Ochi, T., Wu, Q., Ascher, D. B., Chirgadze, D., Sibanda, B. L. and Blundell, T. L. Achieving selectivity in space and time with DNA double-strand-break response and repair: molecular stages and scaffolds come with strings attached. Structural Chemistry 28, 161-171.
Chang, H. H. Y., Watanabe, G., Gerodimos, C. A., Ochi, T.Blundell, T. L., Jackson, S. P. and Lieber, M. R. Different DNA End Configurations Dictate Which NHEJ Components Are Most Important for Joining Efficiency. J. Biol. Chem. 291, 24377-24389.
Wu, Q., Paul, A., Mehmood, S., Su, D., Ochi, T., Robinson, C. V., Wang, B. and Blundell, T. L. Phosphorylated Abraxas promotes dimerization and accumulation of BRCA1 at DNA damage sites. Mol. Cell 61, 1-15.
Ascher, D. B., Jubb, H. C., Pires, D. E. V., Ochi, T., Higueruelo, A. and Blundell, T. L. Protein-Protein Interactions: Structures and Druggability. Multifaceted Roles of Crystallography in Modern Drug Discovery. NATO Science for Peace and Security Series A: Chemistry and Biology. Springer Netherlands, Dordrecht, Ch. 12, 141-163.
Murray, J. E., van der Burg, M., IJspeert, H., Carroll, P., Wu, Q., Ochi, T., Leitch, A., Miller, E. S., Kysela, B., Jawad, A., Bottani, A., Brancati, F., Cappa, M., Cormier-Daire, V., Deshpande, C., Faqeih, E. A., Graham, G., Ranza, E., Blundell, T. L., Jackson, A. P., Stewart, G. S., Bicknell, L. S. Mutations in the NHEJ component XRCC4 cause primordial dwarfism. AJHG 96, 412-424.
Ochi, T., Blackford, A. N., Coates, J., Jhujh, S., Mehmood, S., Tamura, N., Travers, J., Wu, Q., Draviam, V. M., Robinson, C. V., Blundell T. L. and Jackson S. P. PAXX, a paralog of XRCC4 and XLF, interacts with Ku to promote DNA double-strand break repair. Science 347, 185-188.
Ochi, T.*, Wu, Q. and Blundell, T. L. The spatial organization of non-homologous end joining: From Bridging to end joining. DNA Repair 17, 98-109.
Ochi, T.*, Gu, X. and Blundell, T. L. Structure of the catalytic region of DNA ligase IV in complex with an Artemis fragment sheds light on Double-Strand Break Repair. Structure 21, 1-8.
Ochi, T.*, Wu, Q., Chirgadze, D. Y., Grossmann, J. G., Bolanos-Garcia, V. M. and Blundell, T. L. Structural insights into the role of domain flexibility in human DNA ligase IV. Structure 20, 1212-1222.
Bolanos-Garcia, V. M., Wu, Q., Ochi, T., Chirgadze, D. Y., Sibanda, B. L. and Blundell, T. L. Spatial and temporal organization of multi-protein assemblies: achieving sensitive control in information-rich cell-regulatory systems. Phil. Trans. R. Soc. A. 370, 3023-3039.
Wu, Q., Sibanda, B. L., Ochi, T., Bolanos-Garcia, V. M., Blundell, T. L. and Chirgadze, D. Y. Spatial and temporal organisation of multiprotein systems of cell regulation and signalling: What can we learn from NHEJ system of Double-Strand break repair? Macromolecular Crystallography. NATO Science for Peace and Security Series A: Chemistry and Biology. Springer Netherlands, Dordrecht, Ch. 1, 1-31.
Wu, Q., Ochi, T., Matak-Vinkovic, D., Robinson C. V., Chirgadze, D. Y. and Blundell, T. L. Non-homologous end-joining partners in a helical dance: structural studies of XLF-XRCC4 interactions. Biochem. Soc. Trans. 39, 1387-92.
Ochi, T.*, Sibanda, B. L., Wu, Q., Chirgadze, D. Y., Bolanos-Garcia, V. M. and Blundell, T. L. Structural Biology of DNA Repair: Spatial Organisation of the Multicomponent Complexes of Nonhomologous End Joining. Journal of Nucleic Acids, 2010, 1-19.
Ochi, T., Bolanos-Garcia, V. M., Stojanoff, V. and Moreno, A. Perspectives on protein crystallization. Progress in Biophysics and Molecular Biology 101, 56-63.
Surade, S., Ochi, T., Nietlispach, D., Chirgadze, D. and Moreno, A. Investigations into Protein Crystallization in the Presence of a Strong Magnetic Field. Crystal Growth and Design 10, 691-699.
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