The archaeal lsm protein binds to small RNAs

Journal of Biological Chemistry

Volumn 285, Issue 45, 2010, Pages 34429-34438

  Fischer, Susan ^a   Benz, Juliane ^a   Späth, Bettina ^a   Maier, Lisa Katharina ^a   Straub, Julia ^b   Granzow, Michaela ^b   Raabe, Monika ^c   Urlaub, Henning ^c   Hoffmann, Jan ^b   Brutschy, Bernd ^b   Allers, Thorsten ^d   Soppa, Jörg ^b   Marchfelder, Anita ^a  

^a UNIVERSITY OF ULM   (Germany)

^b GOETHE UNIVERSITY   (Germany)

^c MAX PLANCK INSTITUTE FOR BIOPHYSICAL CHEMISTRY   (Germany)

^d UNIVERSITY OF NOTTINGHAM   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARCHAEAL; CELLULAR PATHWAY; CELLULAR PROCESS; CO-IMMUNOPRECIPITATIONS; COMPLEX FORMATIONS; COPY NUMBER; ELECTROPHORETIC MOBILITY SHIFT ASSAY; HALOFERAX VOLCANII; IN-VITRO; IN-VITRO ANALYSIS; IN-VIVO; ION DESORPTION; LASER INDUCED; NORTHERN BLOT ANALYSIS; PROTEIN BINDS; PROTEIN INTERACTION; RIBOSOMAL PROTEINS; RNA METABOLISMS; SMALL RNA;

COMPLEXATION; DESORPTION; ELECTROPHORETIC MOBILITY; GENES; MASS SPECTROMETRY; RNA; TRANSCRIPTION;

PROTEINS;

BACTERIAL PROTEIN; BACTERIAL RNA; PROTEIN LSM; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL STRAIN; CONTROLLED STUDY; GEL MOBILITY SHIFT ASSAY; GENE DELETION; GENE EXPRESSION REGULATION; HALOFERAX VOLCANII; IMMUNOPRECIPITATION; IN VITRO STUDY; IN VIVO STUDY; MASS SPECTROMETRY; NONHUMAN; OPEN READING FRAME; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN INTERACTION; RNA STRUCTURE; STRUCTURE ANALYSIS;

ARCHAEAL PROTEINS; HALOFERAX VOLCANII; MASS SPECTROMETRY; POLY U; PROTEIN BINDING; PROTEIN MULTIMERIZATION; RIBOSOMAL PROTEINS; RNA, ARCHAEAL; RNA, TRANSFER; RNA-BINDING PROTEINS; TRANSCRIPTION, GENETIC;

ARCHAEA; BACTERIA (MICROORGANISMS); EUKARYOTA; HALOBACTERIA; HALOFERAX VOLCANII;

EID: 78049401545     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M110.118950     Document Type: Article

References (75)

1. Møller, T., Franch, T., Højrup, P., Keene, D. R., Bächinger, H. P., Brennan, R. G., and Valentin-Hansen, P. (2002) Mol. Cell 9, 23-30
2. Zhang, A., Wassarman, K. M., Ortega, J., Steven, A. C., and Storz, G. (2002) Mol. Cell 9, 11-22
3. Valentin-Hansen, P., Eriksen, M., and Udesen, C. (2004) Mol. Microbiol. 51, 1525-1533
4. Sun, X., Zhulin, I., and Wartell, R. M. (2002) Nucleic. Acids Res. 30, 3662-3671
5. Wilusz, C. J., and Wilusz, J. (2005) Nat. Struct. Mol. Biol. 12, 1031-1036
6. Schumacher, M. A., Pearson, R. F., Møller, T., Valentin-Hansen, P., and Brennan, R. G. (2002) EMBO J. 21, 3546-3556
7. Senear, A. W., and Steitz, J. A. (1976) J. Biol. Chem. 251, 1902-1912
8. de Haseth, P. L., and Uhlenbeck, O. C. (1980) Biochemistry. 19, 6146-6151
9. Nielsen, J. S., Bøggild, A., Andersen, C. B., Nielsen, G., Boysen, A., Brodersen, D. E., and Valentin-Hansen, P. (2007) RNA 13, 2213-2223
10. Wassarman, K. M., Repoila, F., Rosenow, C., Storz, G., and Gottesman, S. (2001) Genes Dev. 15, 1637-1651
11. Tsui, H. C., Leung, H. C., and Winkler, M. E. (1994) Mol. Microbiol. 13, 35-49
12. Brown, L., and Elliott, T. (1996) J. Bacteriol. 178, 3763-3770
13. Muffler, A., Fischer, D., and Hengge-Aronis, R. (1996) Genes Dev. 10, 1143-1151
14. Massé, E., and Gottesman, S. (2002) Proc. Natl. Acad. Sci. U.S.A. 99, 4620-4625
15. Møller, T., Franch, T., Udesen, C., Gerdes, K., and Valentin-Hansen, P. (2002) Genes Dev. 16, 1696-1706
16. Sledjeski, D. D., Whitman, C., and Zhang, A. (2001) J. Bacteriol. 183, 1997-2005
17. Zhang, A., Altuvia, S., Tiwari, A., Argaman, L., Hengge-Aronis, R., and Storz, G. (1998) EMBO J. 17, 6061-6068
18. Thore, S., Mayer, C., Sauter, C., Weeks, S., and Suck, D. (2003) J. Biol. Chem. 278, 1239-1247
19. Tharun, S., He, W., Mayes, A. E., Lennertz, P., Beggs, J. D., and Parker, R. (2000) Nature 404, 515-518
20. Bouveret, E., Rigaut, G., Shevchenko, A., Wilm, M., and Séraphin, B. (2000) EMBO J. 19, 1661-1671
21. Pannone, B. K., Xue, D., and Wolin, S. L. (1998) EMBO J. 17, 7442-7453
22. Mayes, A. E., Verdone, L., Legrain, P., and Beggs, J. D. (1999) EMBO J. 18, 4321-4331
23. Salgado-Garrido, J., Bragado-Nilsson, E., Kandels-Lewis, S., and Séraphin, B. (1999) EMBO J. 18, 3451-3462
24. Klenk, H. P., Clayton, R. A., Tomb, J. F., White, O., Nelson, K. E., Ketchum, K. A., Dodson, R. J., Gwinn, M., Hickey, E. K., Peterson, J. D., Richardson, D. L., Kerlavage, A. R., Graham, D. E., Kyrpides, N. C., Fleischmann, R. D., Quackenbush, J., Lee, N. H., Sutton, G. G., Gill, S., Kirkness, E. F., Dougherty, B. A., McKenney, K., Adams, M. D., Loftus, B., Peterson, S., Reich, C. I., McNeil, L. K., Badger, J. H., Glodek, A., Zhou, L., Overbeek, R., Gocayne, J. D., Weidman, J. F., McDonald, L., Utterback, T., Cotton, M. D., Spriggs, T., Artiach, P., Kaine, B. P., Sykes, S. M., Sadow, P. W., D'Andrea, K. P., Bowman, C., Fujii, C., Garland, S. A., Mason, T. M., Olsen, G. J., Fraser, C. M., Smith, H. O., Woese, C. R., and Venter, J. C. (1997) Nature 390, 364-370
25. Smith, D. R., Doucette-Stamm, L. A., Deloughery, C., Lee, H., Dubois, J., Aldredge, T., Bashirzadeh, R., Blakely, D., Cook, R., Gilbert, K., Harrison, D., Hoang, L., Keagle, P., Lumm, W., Pothier, B., Qiu, D., Spadafora, R., Vicaire, R., Wang, Y., Wierzbowski, J., Gibson, R., Jiwani, N., Caruso, A., Bush, D., Safer, H., Patwell, D., Prabhakar, S., McDougall, S., Shimer, G., Goyal, A., Piertrokovski, S., Church, G. M., Daniels, C. J., Mao, J. I., Rice, P., Nölling, J., and Reeve, J. N. (1997) J. Bacteriol 179, 7135-7155
26. Pühler, G., Leffers, H., Gropp, F., Palm, P., Klenk, H. P., Lottspeich, F., Garrett, R. A., and Zillig, W. (1989) Proc. Natl. Acad. Sci. U.S.A. 86, 4569-4573
27. Omer, A. D., Lowe, T. M., Russell, A. G., Ebhardt, H., Eddy, S. R., and Dennis, P. P. (2000) Science. 288, 517-522
28. Törö, I., Thore, S., Mayer, C., Basquin, J., Séraphin, B., and Suck, D. (2001) EMBO J. 20, 2293-2303
29. Khusial, P., Plaag, R., and Zieve, G. W. (2005) Trends Biochem. Sci. 30, 522-528
30. Mura, C., Phillips, M., Kozhukhovsky, A., and Eisenberg, D. (2003) Proc. Natl. Acad. Sci. U.S.A. 100, 4539-4544
31. Achsel, T., Stark, H., and Lührmann, R. (2001) Proc. Natl. Acad. Sci. U.S.A. 98, 3685-3689
32. Collins, B. M., Harrop, S. J., Kornfeld, G. D., Dawes, I. W., Curmi, P. M., and Mabbutt, B. C. (2001) J. Mol. Biol. 309, 915-923
33. Mura, C., Cascio, D., Sawaya, M. R., and Eisenberg, D. S. (2001) Proc. Natl. Acad. Sci. U.S.A. 98, 5532-5537
34. Törö, I., Basquin, J., Teo-Dreher, H., and Suck, D. (2002) J. Mol. Biol. 320, 129-142
35. Mura, C., Kozhukhovsky, A., Gingery, M., Phillips, M., and Eisenberg, D. (2003) Protein Sci. 12, 832-847
36. Sauter, C., Basquin, J., and Suck, D. (2003) Nucleic Acids Res. 31, 4091-4098
37. Soppa, J., Straub, J., Brenneis, M., Jellen-Ritter, A., Heyer, R., Fischer, S., Granzow, M., Voss, B., Hess, W. R., Tjaden, B., and Marchfelder, A. (2009) Biochem. Soc Trans. 37, 133-136
38. Straub, J., Brenneis, M., Jellen-Ritter, A., Heyer, R., Soppa, J., and Marchfelder, A. (2009) RNA Biol 6, 281-292
39. Allers, T., Ngo, H. P., Mevarech, M., and Lloyd, R. G. (2004) Appl. Environ. Microbiol. 70, 943-953
40. Shimmin, L. C., and Dennis, P. P. (1996) J. Bacteriol. 178, 4737-4741
41. Large, A., Stamme, C., Lange, C., Duan, Z., Allers, T., Soppa, J., and Lund, P. A. (2007) Mol. Microbiol. 66, 1092-1106
42. Chomczynski, P., and Sacchi, N. (1987) Anal. Biochem. 162, 156-159
43. Herrmann, U., and Soppa, J. (2002) Mol. Microbiol. 46, 395-409
44. Baumann, A., Lange, C., and Soppa, J. (2007) BMC Cell Biol. 8, 21
45. Yokobori, S., and Pääbo, S. (1995) Proc. Natl. Acad. Sci. U.S.A. 92, 10432-10435
46. Pfeiffer, F., Broicher, A., Gillich, T., Klee, K., Mejía, J., Rampp, M., and Oesterhelt, D. (2008) Arch. Microbiol. 190, 281-299
47. Hölzle, A., Fischer, S., Heyer, R., Schütz, S., Zacharias, M., Walther, P., Allers, T., and Marchfelder, A. (2008) RNA 14, 928-937
48. Späth, B., Kirchner, S., Vogel, A., Schubert, S., Meinlschmidt, P., Aymanns, S., Nezzar, J., and Marchfelder, A. (2005) J. Biol. Chem. 280, 35440-35447
49. Morgner, N., Barth, H., and Brutschy, B. (2006) Aust. J. Chem. 59, 109-114
50. Morgner, N., Kleinschroth, T., Barth, H. D., Ludwig, B., and Brutschy, B. (2007) J. Am. Soc. Mass Spectrom. 18, 1429-1438
51. Bitan-Banin, G., Ortenberg, R., and Mevarech, M. (2003) J. Bacteriol. 185, 772-778
52. Sambrook, J., and Russell, D. (2001) Molecular Cloning: A Laboratory Manual, pp. 6.47-6.58, Cold Spring Harbor Press, New York
53. Kunzmann, A., Brennicke, A., and Marchfelder, A. (1998) Proc. Natl. Acad. Sci. U.S.A. 95, 108-113
54. Shevchenko, A., Wilm, M., Vorm, O., and Mann, M. (1996) Anal Chem. 68, 850-858
55. Zaigler, A., Schuster, S. C., and Soppa, J. (2003) Mol. Microbiol 48, 1089-1105
56. Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D. J. (1997) Nucleic Acids Res. 25, 3389-3402
57. Brenneis, M., Hering, O., Lange, C., and Soppa, J. (2007) PLoS Genet 3, e229
58. Azam, T. A., and Ishihama, A. (1999) J. Biol. Chem. 274, 33105-33113
59. Achsel, T., Brahms, H., Kastner, B., Bachi, A., Wilm, M., and Lührmann, R. (1999) EMBO J. 18, 5789-5802
60. Kufel, J., Allmang, C., Verdone, L., Beggs, J. D., and Tollervey, D. (2002) Mol. Cell Biol. 22, 5248-5256
61. Lee, T., and Feig, A. L. (2008) RNA 14, 514-523
62. Zhang, A., Wassarman, K. M., Rosenow, C., Tjaden, B. C., Storz, G., and Gottesman, S. (2003) Mol. Microbiol. 50, 1111-1124
63. Allers, T., and Mevarech, M. (2005) Nat. Rev. Genet. 6, 58-73
64. Butland, G., Peregrín-Alvarez, J. M., Li, J., Yang, W., Yang, X., Canadien, V., Starostine, A., Richards, D., Beattie, B., Krogan, N., Davey, M., Parkinson, J., Greenblatt, J., and Emili, A. (2005) Nature 433, 531-537
65. Omer, A. D., Ziesche, S., Ebhardt, H., and Dennis, P. P. (2002) Proc. Natl. Acad. Sci. U.S.A. 99, 5289-5294
66. Muffler, A., Traulsen, D. D., Fischer, D., Lange, R., and Hengge-Aronis, R. (1997) J. Bacteriol. 179, 297-300
67. Sittka, A., Pfeiffer, V., Tedin, K., and Vogel, J. (2007) Mol. Microbiol. 63, 193-217
68. Christiansen, J. K., Larsen, M. H., Ingmer, H., Søgaard-Andersen, L., and Kallipolitis, B. H. (2004) J. Bacteriol. 186, 3355-3362
69. Ding, Y., Davis, B. M., and Waldor, M. K. (2004) Mol. Microbiol. 53, 345-354
70. Lucchetti-Miganeh, C., Burrowes, E., Baysse, C., and Ermel, G. (2008) Microbiology 154, 16-29
71. Robertson, G. T., and Roop, R. M., Jr. (1999) Mol. Microbiol. 34, 690-700
72. Sharma, A. K., and Payne, S. M. (2006) Mol. Microbiol. 62, 469-479
73. Sonnleitner, E., Hagens, S., Rosenau, F., Wilhelm, S., Habel, A., Jäger, K. E., and Bläsi, U. (2003) Microb. Pathog. 35, 217-228
74. Bohn, C., Rigoulay, C., and Bouloc, P. (2007) BMC Microbiol. 7, 10
75. Dyall-Smith, M. L. (2001) The Halohandbook: Protocols for Haloarchael Genetics, http://www.haloarchaea.com/resources/halohandbook/Halohandbook-2008- v7.pdf