Footprint analysis of the RAG protein recombination signal sequence complex for V(D)J type recombination

Molecular and Cellular Biology

Volumn 18, Issue 1, 1998, Pages 655-663

  Nagawa, Fumikiyo ^a   Ishiguro, Kei Ichiro ^a   Tsuboi, Akio ^a   Yoshida, Tomoyuki ^a   Ishikawa, Akiko ^a   Takemori, Toshitada ^b   Otsuka, Anthony J ^c   Sakano, Hitoshi ^a  

^a UNIVERSITY OF TOKYO   (Japan)

^b NATIONAL INSTITUTE OF INFECTIOUS DISEASES   (Japan)

^c ILLINOIS STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DIMETHYL SULFATE; DNA; GENE PRODUCT;

ANIMAL CELL; ARTICLE; DNA FOOTPRINTING; DNA METHYLATION; GEL MOBILITY SHIFT ASSAY; GENE SEQUENCE; GENETIC RECOMBINATION; MUTATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN DNA BINDING;

ANIMALIA;

EID: 0031961996     PISSN: 02707306     EISSN: None     Source Type: Journal    
DOI: 10.1128/MCB.18.1.655     Document Type: Article

References (47)

1. Agrawal, A., and G. Schatz. 1997. RAG1 and RAG2 form a stable postcleavage synaptic complex with DNA containing signal ends in V(D)J recombination. Cell 89:43-53.
2. Akamatsu, Y., N. Tsurushita, F. Nagawa, M. Matsuoka, K. Okazaki, M. Imai, and H. Sakano. 1994. Essential residues in V(D)J recombination signals. J. Immunol. 153:4520-4529.
3. Akira, S., K. Okazaki, and H. Sakano. 1987. Two pairs of recombination signals are sufficient to cause immunoglobulin V-(D)-J joining. Science 238: 1134-1138.
4. Blunt, T., N. J. Finnie, G. E. Taccioli, G. C. M. Smith, J. Demengeot, T. M. Gottlieb, R. Mizuta, A. J. Varghese, F. W. Alt, P. A. Jeggo, and S. P. Jackson. 1995. Defective DNA-dependent protein kinase activity is linked to V(D)J recombination and DNA repair defects associated with the murine scid mutation. Cell 80:813-823.
5. Brenowitz, M., D. F. Senear, M. A. Shea, and G. K. Ackers. 1986. Quantitative DNase I footprint titration: a method for studying protein-DNA interactions. Methods Enzymol. 130:132-181.
6. Cuomo, C. A., and M. A. Oettinger. 1994. Analysis of regions of RAG-2 important for V(D)J recombination. Nucleic Acids Res. 22:1810-1814.
7. Difilippantanio, M. J., C. J. McMahan, Q. M. Eastman, E. Spanopoulou, and D. G. Schatz. 1996. Rag-1 mediates signal sequence recognition and recruitment of Rag-1 in V(D)J recombination. Cell 87:253-262.
8. H. Cell 19:981-992.
9. Eastman, Q. M., T. M. J. Leu, and D. G. Schatz. 1996. Initiation of V(D)J recombination in vitro obeying the 12/23 rule. Nature 380:85-88.
10. Feng, J.-A., R. C. Johnson, and R. E. Dickerson. 1994. Hin recombinase bound to DNA: the origin of specificity in major and minor groove interactions. Science 263:348-355.
11. Gilfillan, S., A. Dierich, M. Lemeur, C. Benoist, and D. Mathis. 1993. Mice lacking TdT: mature animals with an immature lymphocyte repertoire. Science 261:1175-1178.
12. Glasgow, A. C., M. F. Bruist, and M. I. Simon. 1989. DNA-binding properties of the Hin recombinase. J. Biol. Chem. 264:10072-10082.
13. Grawunder, U., W. Matthias, W. Xiantuo, P. Kulesza, T. E. Wilson, M. Mann, and M. R. Lieber. 1997. Activity of DNA ligase IV stimulated by complex formation with XRCC4 protein in mammalian cells. Nature 388: 492-495.
14. Hesse, J. E., M. R. Lieber, K. Mizuuchi, and M. Gellert. 1989. V(D)J recombination: a functional definition of the joining signals. Genes Dev. 3:1053-1061.
15. Hiom, K., and M. Gellert. 1997. A stable RAG1-RAG2-DNA complex that is active in V(D)J cleavage. Cell 88:65-72.
16. Hughes, K. T., P. C. W. Gaines, J. E. Karlinsey, R. Vinayak, and M. I. Simon. 1992. Sequence-specific interaction of the Salmonella Hin recombinase in both major and minor grooves of DNA. EMBO J. 11:2695-2705.
17. Kirchgessner, C. U., C. K. Patil, J. W. Evans, C. A. Cuomo, L. M. Fried, T. Carter, M. A. Oettinger, and J. M. Brown. 1995. DNA-dependent kinase (p350) as a candidate gene for the murine SCID defect. Science 267:1178-1183.
18. Komori, T., A. Okada, V. Stewart, and F. W. Alt. 1993. Lack of N regions in antigen receptor variable region genes of TdT-deficient lymphocytes. Science 261:1171-1175.
19. Lees-Miller, S. P., R. Godbout, D. W. Chan, M. Weinfeld, R. S. Day III, G. M. Barron, and J. Allalunis-Turner. 1995. Absence of p350 subunit of DNA-activated protein kinase from a radiosensitive human cell line. Science 267:1183-1185.
20. Lewis, S. M., and G. G. Wu. 1997. The origin of V(D)J recombination. Cell 88:159-162.
21. Li, Z., T. Otevrel, Y. Gao, H.-L. Cheng, B. Seed, T. D. Stamato, G. E. Taccioli, and F. W. Alt. 1995. The XRCC4 gene encodes a novel protein involved in DNA double-strand break repair and V(D)J recombination. Cell 83:1079-1089.
22. Max, E. E., J. G. Seidman, and P. Leder. 1979. Sequences of five potential recombination sites encoded close to an immunoglobulin kappa constant region gene. Proc. Natl. Acad. Sci. USA 76:3450-3454.
23. Maxam, A. M., and S. Gilbert. 1977. A new method for sequencing DNA. Proc. Natl. Acad. Sci. USA 74:560-564.
24. 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.
25. McMahan, C. J., M. J. Sadofsky, and D. G. Schatz. 1997. Definition of a large region of RAG1 that is important for coimmunoprecipitation of RAG2. J. Immunol. 158:2202-2210.
26. Oettinger, M. A., D. G. Schatz, C. Gerka, and D. Baltimore. 1990. RAG-1 and RAG-2, adjacent genes that synergistically activate V(D)J recombination. Science 248:1517-1523.
27. O'Reilly, D. R., L. K. Miller, and V. A. Luckow. 1994. Baculovirus expression vectors: a laboratory manual. Oxford University Press, New York, N.Y.
28. Ramsden, D. A., T. T. Paull, and M. Gellert. 1997. Cell-free V(D)J recombination. Nature 388:488-491.
29. Roth, D. B., J. P. Menetski, P. M. Nakajima, M. J. Bosma, and M. Gellert. 1992. V(D)J recombination: covalently sealed (hairpin) coding ends in scid mouse thymocytes. Cell 70:983-991.
30. Sadofsky, M. J., J. E. Hesse, J. F. McBlane, and M. Gellert. 1993. Expression and V(D)J recombination activity of mutated RAG-1 proteins. Nucleic Acids Res. 21:5644-5650.
31. Sadofsky, M. J., J. E. Hesse, and M. Gellert. 1994. Definition of a core region of RAG-2 that is functional in V(D)J recombination. Nucleic Acids Res. 22:1805-1809.
32. Sakano, H., K. Huppi, G. Heinrich, and S. Tonegawa. 1979. Sequences at the somatic recombination sites of immunoglobulin light-chain genes. Nature 280:288-294.
33. Sakano, H., R. Maki, Y. Kurosawa, W. Roeder, and S. Tonegawa. 1980. Two types of somatic recombination are necessary for the generation of compte immunoglobulin heavy-chain genes. Nature 286:676-683.
34. Sakano, H., Y. Kurosawa, M. Weigert, and S. Tonegawa. 1981. Identification and nucleotide sequence of a diversity DNA segment (D) of immunoglobulin heavy-chain genes. Nature 290:562-565.
35. Savilahti, H., and K. Mizuuchi. 1996. Mu transpositional recombination: donor DNA cleavage and strand transfer in trans by the Mu transposase. Cell 85:271-280.
36. Schatz, D. G., M. A. Oettinger, and D. Baltimore. 1989. The V(D)J recombination-activating gene, RAG-1. Cell 59:1035-1048.
37. Schlissel, M., A. Constantinescu, T. Morrow, M. Baxter, and A. Beug. 1993. Double-strand signal sequence breaks in V(D)J recombination are blunt, 5′-phosphorylated, RAG-dependent, and cell cycle regulated. Genes Dev. 7:2520-2532.
38. Sen, R., and D. Baltimore. 1986. Multiple nuclear factors interact with the immunoglobulin enhancer sequences. Cell 46:705-716.
39. . Silver, D. P., E. Spanopoulou, R. C. Mulligan, and D. Baltimore. 1993. Dispensable sequence motifs in the RAG-1 and RAG-2 genes for plasmid V(D)J recombination. Proc. Natl. Acad. Sci. USA 90:6100-6104.
40. Singh, H., R. Sen, D. Baltimore, and P. Sharp. 1986. A nuclear factor which binds to a conserved sequence motif in transcriptional control elements of immunoglobulin genes. Nature 319:154-158.
41. Smith, G. E., G. Ju, B. L. Ericson, J. Moschera, H.-W. Lahm, R. Chizzonite, and M. D. Summers. 1985. Modification and secretion of human interleukin 2 produced in insect cells by a baculovirus expression vector. Proc. Natl. Acad. Sci. USA 82:8404-8408.
42. Spanopoulou, E., F. Zaitseva, F.-H. Wang, S. Santagata, D. Baltimore, and G. Panayotou. 1996. The homeodomain region of Rag-1 reveals the parallel mechanisms of bacterial and V(D)J recombination. Cell 87:263-276.
43. Taccioli, G. E., G. Rathbun, E. Oltz, T. Stamato, P. A. Jeggo, and F. W. Alt. 1993. Impairment of V(D)J recombination in double strand break mutants. Science 260:207-210.
44. Tonegawa, S. 1983. Somatic generation of antibody diversity. Nature 302: 575-581.
45. van Gent, D. C., J. F. McBlane, D. A. Ramsden, M. J. Sadofsky, J. E. Hesse, and M. Gellert. 1995. Initiation of V(D)J recombination in a cell-free system. Cell 81:925-934.
46. van Gent, D. C., D. A. Ramsden, and M. Gellert. 1996. The RAG1 and RAG2 proteins establish the 12/23 rule in V(D)J recombination. Cell 85: 107-113.
47. Zhu, C., M. A. Bogue, D.-S. Lim, P. Hasty, and D. B. Roth. 1996. Ku80-deficient mice exhibit severe combined immunodeficiency and defective processing of V(D)J recombination intermediates. Cell 86:379-390.