Structure and functions of 5S rRNA

Acta Biochimica Polonica

Volumn 48, Issue 1, 2001, Pages 191-198

  Barciszewska, Miroslawa Z ^a   Szymański, Maciej ^a   Erdmann, Volker A ^b   Barciszewski, Jan ^a  

^a POLISH ACADEMY OF SCIENCES   (Poland)

^b FREIE UNIVERSITÄT BERLIN   (Germany)

Author keywords

50S subunit structure; 5S rRNA; Crystal structure; Ribosomal 5S RNA

Indexed keywords

RNA 5S;

ANIMAL; BIOLOGICAL MODEL; CHEMISTRY; CONFORMATION; PROTEIN BINDING; REVIEW; X RAY CRYSTALLOGRAPHY;

ANIMALS; CRYSTALLOGRAPHY, X-RAY; MODELS, GENETIC; NUCLEIC ACID CONFORMATION; PROTEIN BINDING; RNA, RIBOSOMAL, 5S;

EID: 0035236822     PISSN: 0001527X     EISSN: None     Source Type: Journal    
DOI: 10.18388/abp.2001_5126     Document Type: Review

References (39)

1. Porse, B.T. & Garrett, R.A. (1999) Ribosomal mechanics, antibiotics, and GTP hydrolysis. Cell 97, 423-426.
2. Garrett, R. (1999) Mechanics of the ribosome. Nature 400, 811-812.
3. Davies, C. & White, S.W. (2000) Electrons and X-rays gang up on the ribosome. Structure Fold Desgn. 8, R41-R45.
4. Green, R. & Puglisi, J.D. (1999) The ribosome revealed. Nat. Struct. Biol. 6, 999-1003.
5. Agrawal, R.K. & Frank, J. (1999) Structural studies of the translational apparatus. Curr. Opin. Struct. Biol. 9, 215-221.
6. Ban, N., Nissen, P., Penczek, P., Hansen, J., Capel, M., Moore, P.B. & Steitz, T.A. (1999) Placement of protein and RNA structures into a 5 Å-resolution map of the 50S ribosomal subunit. Nature 400, 841-847.
7. Clemons, W.M., May, J.L.C., Wimberly, B.T., McCutcheon, J.P., Capel, M.S. & Ramakrishan, V. (1999) Structure of a bacterial 30S ribosomal subunit at 5.5 Å resolution. Nature 400, 833-840.
8. Cate, J.H., Yusupov, M.M., Yusupova, G.Zh., Earnest, T.N. & Noller, H.F. (1999) X-ray crystal structures of 70S ribosome functional complexes. Science 285, 2095-2104.
9. Spahn, Ch.M.T., Grassucci, R.A., Penczek, P. & Frank, J. (1999) Direct three-dimensional localization and positive identification of RNA helices within the ribosome by means of genetic tagging and cryo-electron microscopy. Structure 7, 1567-1573.
10. Stark, H., Rodnina, M.V., Wieden, H.-J., van Heel, M. & Wintermeyer, W. (2000) Large-scale movement of elongation factor G and extensive conformational change of the ribosome during translocation. Cell 100, 301-309.
11. Gabashvili, I.S., Agrawal, R.K., Spahn, Ch.M.T., Grassucci, R.A., Svergun, D.I., Frank, J. & Penczek, P. (2000) Solution structure of the E. coli 70S ribosome at 11.5 Å resolution. Cell 100, 537-549.
12. Gray, M.W., Burger, G. & Lang, B.F (1999) Mitochondrial evolution. Science 283, 1476-1481.
13. Ban, N., Nissen, P., Hansen, J., Moore, P.B. & Steitz, T.A. (2000) The complete atomic structure of the large ribosomal subunit at 2.4 Å resolution. Science 289, 905-920.
14. Nissen, P., Hansen, J., Ban, N., Moore, P.B. & Steitz, T.A. (2000) The structural basis of ribosome activity in peptide bond synthesis. Science 289, 920-930.
15. Szymański, M., Barciszewska, M., Barciszewski, J. & Erdmann, V.A. (2000) 5S ribosomal RNA database Y2K. Nucleic Acids Res. 28, 166-167.
16. Barciszewska, M.Z., Szymański, M., Erdmann, V.A. & Barciszewski, J. (2000) 5S ribosomal RNA. Biomacromolecules 1, 297-302.
17. Kirpekar, F., Douthwaite, S. & Roepstorff, P. (2000) Mapping posttranscriptional modifications in 5S ribosomal RNA by MALDI mass spectrometry. RNA 6, 296-306.
18. Funari, S.S., Rapp, G., Perbrandt, M., Dierks, K., Vallazza, M., Betzel, C., Erdmann, V.A. & Svergun, D.I. (2000) Structure of free Thermus flavus 5S rRNA at 1.3 nm resolution from synchrotron X-ray solution scattering. J. Biol. Chem. 275, 31283-31288.
19. Mueller, F., Sommer, I., Baranov, P., Matadeen, R., Stoldt, M., Wohnert, J., Gorlach, M., van Heel, M. & Brimacombe, R. (2000) The 3D arrangement of the 23 S and 5 S rRNA in the Escherichia coli 50 S ribosomal subunit based on a cryo-electron microscopic reconstruction at 7.5 Å resolution. J. Mol. Biol. 298, 35-59.
20. Sergiev, P.V., Bogdanov, A.A., Dahlberg, A.E. & Dontsova, O. (2000) Mutations at position A960 of E. coli 23 S ribosomal RNA influence the structure of 5 S ribosomal RNA and the peptidyltransferase region of 23 S ribosomal RNA. J. Mol. Biol. 299, 379-389.
21. Khaitovich, P. & Mankin, A.S. (2000) Effect of antibiotics on large ribosomal subunit assembly reveals possible function of 5S rRNA. J. Mol. Biol. 291, 1025-1034.
22. Lorenz, S., Perbandt, M., Lippmann, C., Moore, K., DeLucas, L.J., Betzel, C. & Erdmann, V.A. (2000) Crystallization of engineered Thermus flavus 5S rRNA under earth and microgravity conditions. Acta Crystallogr. D. Biol. Crystallogr. 56, 498-500.
23. Bloemink, M.J. & Moore, P.B. (1999) Phosphorylation of ribosomal protein L18 is required for its folding and binding to 5S rRNA. Biochemistry 38, 13385-13390.
24. Claussen, M., Rudt, F. & Pieler, T. (1999) Functional modules in ribosomal protein L5 for ribonucleoprotein complex formation and nucleocytoplasmic transport. J. Biol. Chem. 274, 33951-33958.
25. Rosorius, O., Fries, B., Stauber, R.H., Hirschmann, N., Bevec, D. & Hauber, J. (2000) Human ribosomal protein L5 contains defined nuclear localization and export signals. J. Biol. Chem. 275, 12061-12068.
26. Park, J.W. & Bae, Y.S. (1999) Phosphorylation of ribosomal protein L5 by protein kinase CKII decreases its 5S rRNA binding activity. Biochem. Biophys. Res. Commun. 263, 475-481.
27. Stoldt, M., Wohnert, J., Ohlenschlager, O., Gorlach, M. & Brown, L.R. (1999) The NMR structure of the 5S rRNA E-domain-protein L25 complex shows preformed and induced recognition. EMBO J. 18, 6508-6521.
28. Lu, M. & Steitz, T.A. (2000) Structure of Escherichia coli ribosomal protein L25 complexed with a 5S rRNA fragment at 1.8 Å resolution. Proc. Natl. Acad. Sci. U.S.A. 97, 2023-2028.
29. Neely, L.S., Lee, B.M., Xu, J., Wright, P.E. & Gottesfeld, J.M. (1999) Identification of a minimal domain of 5 S ribosomal RNA sufficient for high affinity interactions with the RNA-specific zinc fingers of transcription factor IIIA. J. Mol. Biol. 291, 549-560.
30. Jensen, L.R. & Frederiksen, S. (2000) The 5S rRNA genes in Macaca fascicularis are organized in two large tandem repeats. Biochim. Biophys. Acta, 1492, 537-542.
31. Cairns, C.A. & White, R.J. (1998) p53 is a general repressor of RNA polymerase III transcription. EMBO J. 17, 3112-3223.
32. Yu, A., Fan, H.Y., Liao, D., Bailey, A.D. & Weiner, A.M. (2000) Activation of p53 or loss of the Cockayne syndrome group B repair protein causes metaphase fragility of human U1, U2, and 5S genes. Mol. Cell. 5, 801-810.
33. Conconi, A., Liu, X., Koriazova, L., Ackerman, E.J. & Smerdon, M.J. (1999) Tight correlation between inhibition of DNA repair in vitro and transcription factor IIIA binding in 5S ribosomal RNA gene. EMBO J. 18, 1387-1396.
34. Liu, X., Mann, D.B., Suquet, C., Springer, D.L. & Smerdon, M.J. (2000) Ultraviolet damage and nucleosome folding of the 5S ribosomal RNA gene. Biochemistry 39, 557-566.
35. Liu, X. & Smerdon, M.J. (2000) Nucleotide excision repair of the 5 S ribosomal RNA gene assembled into a nucleosome. J. Biol. Chem. 275, 23729-23735.
36. Vitolo, J.M., Thiriet, C. & Hayes, J.J. (2000) The H3-H4 N-terminal tail domains are the primary mediators of transcription factor IIIA access to 5S DNA within a nucleosome. Mol. Cell. Biol. 20, 2167-2175.
37. Mathews, D.H., Sabina, J., Zuker, M. & Turner, D.H. (1999) Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J. Mol. Biol. 288, 911-940.
38. Ding, Y. & Lawrence, C.E. (1999) A Bayesian statistical algorithm for secondary structure prediction. Comput. Chem. 23, 387-400.
39. Zuker, M. (2000) Calculating nucleic acids secondary structure. Curr. Opin. Struct. Biol. 10, 303-310.