The Human SETMAR Protein Preserves Most of the Activities of the Ancestral Hsmar1 Transposase

REFERENCES

• Buisine, N., C. M. Tang, and R. Chalmers. 2002. Transposon-like Correia elements: structure, distribution and genetic exchange between pathogenic Neisseria sp. FEBS Lett. 522:52–58.
   PubMedGoogle Scholar
• Bundock, P., and P. Hooykaas. 2005. An Arabidopsis hAT-like transposase is essential for plant development. Nature 436:282–284.
   PubMed Web of Science ®Google Scholar
• Chalmers, R. M., and N. Kleckner. 1996. IS10/Tn10 transposition efficiently accommodates diverse transposon end configurations. EMBO J. 15:5112–5122.
   PubMedGoogle Scholar
• Chatterji, M., C. L. Tsai, and D. G. Schatz. 2006. Mobilization of RAG-generated signal ends by transposition and insertion in vivo. Mol. Cell. Biol. 26:1558–1568.
   PubMedGoogle Scholar
• Cordaux, R., S. Udit, M. A. Batzer, and C. Feschotte. 2006. Birth of a chimeric primate gene by capture of the transposase gene from a mobile element. Proc. Natl. Acad. Sci. USA 103:8101–8106.
   PubMed Web of Science ®Google Scholar
• Craig, N. L., R. Craigie, M. Gellert, and A. M. Lambowitz. 2002. Mobile DNA II. American Society for Microbiology, Washington, DC.
   Google Scholar
• Crellin, P., S. Sewitz, and R. Chalmers. 2004. DNA looping and catalysis; the IHF-folded arm of Tn10 promotes conformational changes and hairpin resolution. Mol. Cell 13:537–547.
   PubMedGoogle Scholar
• Dawson, A., and D. J. Finnegan. 2003. Excision of the Drosophila mariner transposon mos1. Comparison with bacterial transposition and v(d)j recombination. Mol. Cell 11:225–235.
   PubMedGoogle Scholar
• Dekker, J., K. Rippe, M. Dekker, and N. Kleckner. 2002. Capturing chromosome conformation. Science 295:1306–1311.
   PubMed Web of Science ®Google Scholar
• Derbyshire, V., N. D. Grindley, and C. M. Joyce. 1991. The 3′-5′ exonuclease of DNA polymerase I of Escherichia coli: contribution of each amino acid at the active site to the reaction. EMBO J. 10:17–24.
   PubMed Web of Science ®Google Scholar
• Feschotte, C., N. Jiang, and S. R. Wessler. 2002. Plant transposable elements: where genetics meets genomics. Nat. Rev. Genet. 3:329–341.
   PubMed Web of Science ®Google Scholar
• Goldgur, Y., F. Dyda, A. B. Hickman, T. M. Jenkins, R. Craigie, and D. R. Davies. 1998. Three new structures of the core domain of HIV-1 integrase: an active site that binds magnesium. Proc. Natl. Acad. Sci. USA 95:9150–9154.
   PubMed Web of Science ®Google Scholar
• Grimaud, C., F. Bantignies, M. Pal-Bhadra, P. Ghana, U. Bhadra, and G. Cavalli. 2006. RNAi components are required for nuclear clustering of Polycomb group response elements. Cell 124:957–971.
   PubMed Web of Science ®Google Scholar
• Hiom, K., M. Melek, and M. Gellert. 1998. DNA transposition by the RAG1 and RAG2 proteins: a possible source of oncogenic translocations. Cell 94:463–470.
   PubMedGoogle Scholar
• Izsvak, Z., D. Khare, J. Behlke, U. Heinemann, R. H. Plasterk, and Z. Ivics. 2002. Involvement of a bifunctional, paired-like DNA-binding domain and a transpositional enhancer in Sleeping Beauty transposition. J. Biol. Chem. 277:34581–34588.
   PubMed Web of Science ®Google Scholar
• Izsvak, Z., E. E. Stuwe, D. Fiedler, A. Katzer, P. A. Jeggo, and Z. Ivics. 2004. Healing the wounds inflicted by sleeping beauty transposition by double-strand break repair in mammalian somatic cells. Mol. Cell 13:279–290.
   PubMed Web of Science ®Google Scholar
• Kipling, D., and P. E. Warburton. 1997. Centromeres, CENP-B and Tigger too. Trends Genet. 13:141–145.
   PubMedGoogle Scholar
• Lampe, D. J., M. E. Churchill, and H. M. Robertson. 1996. A purified mariner transposase is sufficient to mediate transposition in vitro. EMBO J. 15:5470–5479.
   PubMed Web of Science ®Google Scholar
• Lander, E. S., et al. 2001. Initial sequencing and analysis of the human genome. Nature 409:860–921.
   PubMed Web of Science ®Google Scholar
• Lee, S. H., M. Oshige, S. T. Durant, K. K. Rasila, E. A. Williamson, H. Ramsey, L. Kwan, J. A. Nickoloff, and R. Hromas. 2005. The SET domain protein Metnase mediates foreign DNA integration and links integration to nonhomologous end-joining repair. Proc. Natl. Acad. Sci. USA 102:18075–18080.
   PubMed Web of Science ®Google Scholar
• Leh, H., P. Brodin, J. Bischerour, E. Deprez, P. Tauc, J. C. Brochon, E. LeCam, D. Coulaud, C. Auclair, and J. F. Mouscadet. 2000. Determinants of Mg2+-dependent activities of recombinant human immunodeficiency virus type 1 integrase. Biochemistry 39:9285–9294.
   PubMed Web of Science ®Google Scholar
• Ling, J. Q., T. Li, J. F. Hu, T. H. Vu, H. L. Chen, X. W. Qiu, A. M. Cherry, and A. R. Hoffman. 2006. CTCF mediates interchromosomal colocalization between Igf2/H19 and Wsb1/Nf1. Science 312:269–272.
   PubMed Web of Science ®Google Scholar
• Lipkow, K., N. Buisine, and R. Chalmers. 2004. Promiscuous target interactions in the mariner transposon Himar1. J. Biol. Chem. 279:48569–48575.
   PubMedGoogle Scholar
• Lipkow, K., N. Buisine, D. J. Lampe, and R. Chalmers. 2004. Early intermediates of mariner transposition: catalysis without synapsis of the transposon ends suggests a novel architecture of the synaptic complex. Mol. Cell. Biol. 24:8301–8311.
   PubMedGoogle Scholar
• Luo, G., Z. Ivics, Z. Izsvak, and A. Bradley. 1998. Chromosomal transposition of a Tc1/mariner-like element in mouse embryonic stem cells. Proc. Natl. Acad. Sci. USA 95:10769–10773.
   PubMed Web of Science ®Google Scholar
• McBlane, J. F., D. C. van-Gent, D. A. Ramsden, C. Romeo, C. A. Cuomo, M. Gellert, and M. A. Oettinger. 1995. Cleavage at a V(D)J recombination signal requires only RAG1 and RAG2 proteins and occurs in two steps. Cell 83:387–395.
   PubMed Web of Science ®Google Scholar
• Messier, T. L., J. P. O'Neill, S. M. Hou, J. A. Nicklas, and B. A. Finette. 2003. In vivo transposition mediated by V(D)J recombinase in human T lymphocytes. EMBO J. 22:1381–1388.
   PubMedGoogle Scholar
• Mizuuchi, K. 1992. Polynucleotidyl transfer reactions in transpositional DNA recombination. J. Biol. Chem. 267:21273–21276.
   PubMed Web of Science ®Google Scholar
• Moore, T., S. Hecquet, A. McLellann, D. Ville, D. Grid, F. Picard, B. Moulard, P. Asherson, A. J. Makoff, D. McCormick, L. Nashef, P. Froguel, A. Arzimanoglou, E. LeGuern, and B. Bailleul. 2001. Polymorphism analysis of JRK/JH8, the human homologue of mouse jerky, and description of a rare mutation in a case of CAE evolving to JME. Epilepsy Res. 46:157–167.
   PubMedGoogle Scholar
• Reiter, L. T., T. Murakami, T. Koeuth, L. Pentao, D. M. Muzny, R. A. Gibbs, and J. R. Lupski. 1996. A recombination hotspot responsible for two inherited peripheral neuropathies is located near a mariner transposon-like element. Nat. Genet. 12:288–297.
   PubMed Web of Science ®Google Scholar
• Richardson, J. M., A. Dawson, N. O'Hagan, P. Taylor, D. J. Finnegan, and M. D. Walkinshaw. 2006. Mechanism of Mos1 transposition: insights from structural analysis. EMBO J. 25:1324–1334.
   PubMed Web of Science ®Google Scholar
• Robertson, H. M., and K. L. Zumpano. 1997. Molecular evolution of an ancient mariner transposon, Hsmar1, in the human genome. Gene 205:203–217.
   PubMed Web of Science ®Google Scholar
• Spilianakis, C. G., M. D. Lalioti, T. Town, G. R. Lee, and R. A. Flavell. 2005. Interchromosomal associations between alternatively expressed loci. Nature 435:637–645.
   PubMed Web of Science ®Google Scholar
• Tolhuis, B., R. J. Palstra, E. Splinter, F. Grosveld, and W. de Laat. 2002. Looping and interaction between hypersensitive sites in the active beta-globin locus. Mol. Cell 10:1453–1465.
   PubMed Web of Science ®Google Scholar
• Travers, A., and G. Muskhelishvili. 1998. DNA microloops and microdomains: a general mechanism for transcription activation by torsional transmission. J. Mol. Biol. 279:1027–1043.
   PubMed Web of Science ®Google Scholar
• Van Pouderoyen, G., R. F. Ketting, A. Perrakis, R. H. Plasterk, and T. K. Sixma. 1997. Crystal structure of the specific DNA-binding domain of Tc3 transposase of C. elegans in complex with transposon DNA. EMBO J. 16:6044–6054.
   PubMedGoogle Scholar
• Watkins, S., G. van Pouderoyen, and T. K. Sixma. 2004. Structural analysis of the bipartite DNA-binding domain of Tc3 transposase bound to transposon DNA. Nucleic Acids Res. 32:4306–4312.
   PubMed Web of Science ®Google Scholar
• Yang, W., J. Y. Lee, and M. Nowontny. 2006. Making and breaking nucleic acids: two-Mg2+-ion catalysis and substrate specificity. Mol. Cell 22:5–13.
   PubMed Web of Science ®Google Scholar
• Zhang, L., A. Dawson, and D. J. Finnegan. 2001. DNA-binding activity and subunit interaction of the mariner transposase. Nucleic Acids Res. 29:3566–3575.
   PubMedGoogle Scholar
• Zhu, H., J. Nandakumar, J. Aniukwu, L. K. Wang, M. S. Glickman, C. D. Lima, and S. Shuman. 2006. Atomic structure and nonhomologous end-joining function of the polymerase component of bacterial DNA ligase D. Proc. Natl. Acad. Sci. USA 103:1711–1716.
   PubMedGoogle Scholar
• Zhu, H., and S. Shuman. 2005. Novel 3′-ribonuclease and 3′-phosphatase activities of the bacterial non-homologous end-joining protein, DNA ligase D. J. Biol. Chem. 280:25973–25981.
   PubMed Web of Science ®Google Scholar