Histone Release during Transcription: NAP1 Forms a Complex with H2A and H2B and Facilitates a Topologically Dependent Release of H3 and H4 from the Nucleosome

Biochemistry

Volumn 43, Issue 9, 2004, Pages 2359-2372

  Levchenko, Vladislav ^a   Jackson, Vaughn ^a  

^a MEDICAL COLLEGE OF WISCONSIN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CROSSLINKING; DNA; ESCHERICHIA COLI; RNA; TOPOLOGY;

HISTONE RELEASE; MULTINUCLEOSOMAL TEMPLATE;

BIOCHEMISTRY;

CELL PROTEIN; DNA TOPOISOMERASE; HISTONE H2A; HISTONE H2B; HISTONE H3; HISTONE H4; PROTEIN NAP1; RNA POLYMERASE; SUBERIMIDIC ACID DIMETHYL ESTER; UNCLASSIFIED DRUG;

ANIMAL CELL; ARTICLE; BINDING COMPETITION; COMPLEX FORMATION; CROSS LINKING; DNA TEMPLATE; ESCHERICHIA COLI; NONHUMAN; NUCLEOSOME; PRIORITY JOURNAL; PROTEIN DNA BINDING; PROTEIN LOCALIZATION; PROTEIN PROTEIN INTERACTION; PROTEIN RNA BINDING; PROTEIN SECRETION; PROTEIN TRANSPORT; RNA TRANSCRIPTION; STRESS;

ANIMALS; CELL CYCLE PROTEINS; CELL LINE, TRANSFORMED; CHICKENS; DNA TOPOISOMERASES, TYPE I; DNA-BINDING PROTEINS; HISTONES; MODELS, CHEMICAL; NUCLEAR PROTEINS; NUCLEOSOMES; PEPTIDE CHAIN TERMINATION, TRANSLATIONAL; PROTEIN BINDING; PROTEIN PROCESSING, POST-TRANSLATIONAL; PROTEINS; RNA-BINDING PROTEINS; TEMPLATES, GENETIC; TRANSCRIPTION, GENETIC;

ANIMALIA; ESCHERICHIA COLI;

EID: 1542267778     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi035737q     Document Type: Article

References (80)

1. Simon, R. H., and Felsenfeld, G. (1979) Nucleic Acids Res. 6, 689-696.
2. Gamper, H. B., and Hearst, J. E. (1982) Cell 29, 81-90.
3. Jackson, V., and Chalkley, R. (1985) Biochemistry 24, 6921-6930.
4. Jackson, V. (1990) Biochemistry 29, 719-731.
5. Kimura, H., and Cook, P. R. (2001) J. Cell Biol. 153, 1341-1353.
6. Thoma, F. (1991) Trends Genet. 7, 175-177.
7. Komberg, R. D., and Lorch, Y. (1991) Cell 67, 833-836.
8. van Holde, K. E., Lohr, D. E., and Robert, C. (1992) J. Biol. Chem. 267, 2837-2840.
9. Adams, C. C., and Workman, J. L. (1993) Cell 72, 305-308.
10. Felsenfeld, G., Clark, D., and Studitsky, V. (2000) Biophys. Chem. 86, 231-237.
11. Godfrey, J. E., Eickbush, T. H., and Moudrianakis, E. N. (1980) Biochemistry 19, 1339-1346.
12. Arents, G., Burlingame, R. W., Wang, B., Love, W. E., and Moudrianakis, E. N. (1991) Proc. Natl. Acad. Sci. U.S.A. 88, 10148-10152.
13. Luger, K., Mader, A. W., Richmond, R. K., Sargent, D. F., and Richmond, T. J. (1997) Nature 389, 251-260.
14. Harp, J. M., Hanson, B. L., Timm, D. E., and Bunick, G. J. (2000) Acta Crystallogr. D56, 1513-1534.
15. Dong, F., and van Holde, K. E. (1991) Proc. Natl. Acad. Sci. U.S.A. 88, 10596-10600.
16. Hayes, J. J., Clark, D. J., and Wolffe, A. P. (1991) Proc. Natl. Acad. Sci. U.S.A. 88, 6829-6833.
17. Godfrey, J. D., Eickbush, T. H., and Moudrianakis, E. N. (1980). Biochemistry 19, 1339-1346.
18. Brooks, W., and Jackson, V. (1994) J. Biol. Chem. 265, 16821-16829.
19. Liu, L. F., and Wang, J. C. (1987) Proc. Natl. Acad. Sci. U.S.A. 84, 7024-7027.
20. Wu, H. Y., Shyy, S., Wang, J. C., and Liu, L. F. (1988) Cell 53, 433-440.
21. Tsao, Y. P., Wu, H. Y., and Liu, L. F. (1989) Cell 56, 111-118.
22. Lodge, J. K., Kazic, T., and Berg, D. E. (1989) J. Bacteriol. 171, 2181-2187.
23. Rahmouni, A. R., and Wells, R. D. (1992) J. Mol. Biol. 223, 131-144.
24. Cook, D. N., Ma, D., Pon, N. G., and Hearst, J. E. (1992) Proc. Natl. Acad. Sci. U.S.A. 89, 10603-10607.
25. Brill, S. J., and Sternglanz, R. (1988) Cell 54, 403-411.
26. Giaever, G. N., and Wang, J. C. (1988) Cell 55, 849-856.
27. Kramer, P. R., and Sinden, R. R. (1997) Biochemistry 36, 3151-3158.
28. Clark, D. J., and Felsenfeld, G. (1994) Cell 71, 11-22.
29. Studitsky, V. M., Clark, D. J., and Felsenfeld, G. (1994) Cell 76, 371-382.
30. Studitsky, V. M., Clark, D. J., and Felsenfeld, G. (1995) Cell 83, 19-27.
31. Studitsky, V. M., Kassavetis, G. A., Geiduschek, E. P., and Felsenfeld, G. (1997) Science 278, 1960-1963.
32. Peng, H. F., and Jackson, V. (1997) Biochemistry 36, 12371-12382.
33. Ten Heggeler-Bordier, B., Muller, S., Monestier, M., and Wahli, W. (2000) J. Mol. Biol. 299, 853-858.
34. Jackson, S., Brooks, W., and Jackson, V. (1994) Biochemistry 33, 5392-5403.
35. Urban, M. K., Franklin, S. G., and Zweidler, A. (1979) Biochemistry 18, 3952-3960.
36. Thomas, J. O., and Kornberg, R. D. (1975) Proc. Natl. Acad. Sci. U.S.A. 72, 2626-2630.
37. O'Neill, T. E., Smith, J. G., and Bradbury, E. M. (1993) Proc. Natl. Acad. Sci. U.S.A. 90, 6203-6207.
38. Pfaffle, P., and Jackson, V. (1990) J. Biol. Chem. 265, 16821-16829.
39. Liu, L., and Miller, K. G. (1981) Proc. Natl. Acad. Sci. U.S.A. 78, 3487-3491.
40. Lynn, R. M., and Wang, J. C. (1989) Proteins: Struct., Funct., Genet. 6, 231-239.
41. Pfaffle, P., Gerlach, V., Bunzel, L., and Jackson, V. (1990) J. Biol. Chem. 265, 16830-16840.
42. King, G. C., Martin, C. T., Pham, T. T., and Coleman, J. E. (1986) Biochemistry 25, 36-40.
43. Peng, H. F., and Jackson, V. (2000) J. Biol. Chem. 275, 657-668.
44. Fujii-Nakata, T., Ishimi, Y., Okuda, A., and Kikuchi, A. (1992) J. Biol. Chem. 267, 20980-20986.
45. Depew, R. E., and Wang, J. C. (1975) Proc. Natl. Acad. Sci. U.S.A. 72, 4275-4279.
46. Anderson, P., and Bauer, W. (1978) Biochemistry 17, 594-601.
47. Stein, A. (1979) J. Mol. Biol. 130, 103-134.
48. Laskey, R. A., and Mills, A. D. (1979) Eur. J. Biochem. 56, 335-342.
49. von Holt, C., Brandt, W. F., Greyling, H. J., Lindsey, G. G., Retief, J. D., Rodrigues, J. A., Schwager, S., and Sewell, B. T. (1989) Methods Enzymol. 170, 431-523.
50. Ishmi, Y., Hirosumi, J., Sato, W., Sugasawa, K., Yokota, S., Hanoaka, F., and Yamada, M. (1984) Eur. J. Biochem. 142, 431-439.
51. Ishmi, Y., Kojima, M., Yamada, M., and Hanaoka, F. (1987) Eur. J. Biochem. 162, 19-24.
52. McQuibban, G. A., Commisso-Cappelli, C. N., and Lewis, P. N. (1998) J. Biol. Chem. 273, 6582-6590.
53. Aragay, A. M., Diaz, P., and Daban, J.-R. (1988) J. Mol. Biol. 204, 141-154.
54. Howe, L., Iskandar, M., and Ausio, J. (1998) J. Biol. Chem. 273, 11625-11629.
55. Caruthers, L. M., Tse, C., Walker, K. P., and Hansen, J. C. (1999) Methods Enzymol. 304, 19-35.
56. Felts, S. J., Weil, P. A., and Chalkley, R. (1990) Mol. Cell. Biol. 10, 2390-2401.
57. Chang, C.-H., and Luse, D. S. (1997) J. Biol. Chem. 272, 23427-23434.
58. O'Neill, T. E., Roberge, M., and Bradbury, E. M. (1992) J. Mol. Biol. 223, 67-78.
59. Feng, H.-P., Scherl, D. S., and Widom, J. (1993) Biochemistry 32, 7824-7831.
60. Jackson, V. (1999) Methods 17, 125-139.
61. Drolet, M., Bi, X., and Liu, L. F. (1994) J. Biol. Chem. 269, 2068-2074.
62. Clark, D. J., and Wolffe, A. P. (1991) EMBO J. 10, 3419-3428.
63. Kireeva, M. L., Walter, W., Tchernakjenko, V., Bondarenko, V., Kashlev, M., and Studitsky, V. M. (2002) Mol. Cell 9, 541-552.
64. Protacio, R. U., Li, G., Lowary, P. T., and Widom, J. (2000) Mol. Cell. Biol. 20, 8866-8878.
65. Gottesfeld, J. M., Belitsky, J. M., Melander, C., Dervan, P. B., and Luger, K. (2002) J. Mol. Biol. 321, 249-263.
66. Mosammaparast, N., Ewart, C. S., and Pemberton, L. F. (2002) EMBO J. 23, 6527-6538.
67. Walter, P. P., Owen-Hughes, T. A., Cote, J., and Workman, J. L. (1995) Mol. Cell. Biol. 15, 6178-6187.
68. Ito, T., Ikehara, T., Nakagawa, T., Kraus, W. L., and Muramatsu, M. (2000) Genes Dev. 14, 1899-1907.
69. Asahara, H., Tartae-Deckert, S., Nakagawa, T., Ikehara, T., Hirose, F., Hunter, T., Ito, T., and Montminy, M. (2002) Mol. Cell. Biol. 22, 2974-2983.
70. Orphanides, G., LeRoy, G., Chang, C. H., Luse, D. S., and Reinberg, D. (1998) Cell 92, 105-116.
71. Orphanides, G., Wu, W. H., Lane, W. S., Hampsey, M., and Reinberg, D. (1999) Nature 400, 284-288.
72. Foe, V. E. (1977) Cold Spring Harbor Symp. Quant. Biol. 42, 723-740.
73. Sogo, J. M., Ness, P. J., Widmer, R. M., Parish, R. W., and Koller, T. (1984) J. Mol. Biol. 178, 897-928.
74. Concini, A., Widmer, R. M., Koller, T., and Sogo, J. M. (1989) Cell 57, 753-761.
75. Tsao, Y. P., Wu, H.-Y., and Liu, L. F. (1989) Cell 56, 111-118.
76. Wang, J. C. (1971) J. Mol. Biol. 55, 523-533.
77. Kirkegaard, K., and Wang, J. C. (1985) J. Mol. Biol. 185, 625-637.
78. Hamiche, A., Carot, V., Alilat, M., De Lucia, F., O'Donohue, M.-F., Revet, B., and Prunell, A. (1996) Proc. Natl. Acad. Sci. U.S.A. 93, 7588-7593.
79. De Lucia, F., Alilat, M., Sivolob, A., and Prunell, A. (1999) J. Mol. Biol. 285, 1101-1119.
80. Hamiche, A., and Richard-Foy, H. (1998) J. Biol. Chem. 273, 9261-9269.