PL EN


Preferencje help
Widoczny [Schowaj] Abstrakt
Liczba wyników
2001 | 48 | 2 |

Tytuł artykułu

The left-handed double helical nucleic acids

Autorzy

Warianty tytułu

Języki publikacji

EN

Abstrakty

EN
The conversion of right-handed dsDNA and dsRNA to the left-handed Z-con - formation in volves a re or ga ni za tion of the nu cleo tides rel a tive to each other. This con- ver sion can be fa cil i tated by the tight bind ing of a Z-conformation-specific pro tein do­main from the ed it ing en zyme dsRNA adenosine deaminase. This may in flu ence the mod i fi ca tion of both pre-mRNAs as well as some replicating RNA viruses.

Słowa kluczowe

Wydawca

-

Rocznik

Tom

48

Numer

2

Opis fizyczny

p.295-312,fig.

Twórcy

autor
  • Massachusetts Institute of Technology, Cambridge, MA 02139, USA
autor

Bibliografia

  • 1. Rich, A. (1993) DNA comes in many forms. Gene 135, 99-109.
  • 2. Wang, A.H., Quigley, G.J., Kolpak, F.J., Crawford, J.L., van Boom, J.H., van der Marel, G. & Rich, A. (1979) Molecular structure of a left-handed double helical DNA fragment at atomic resolution. Nature 282, 680-686.
  • 3. Klysik, J., Stirdivant, S.M., Larson, J.E., Hart, P.A. & Wells, R.D. (1981) Left-handed DNA in restriction fragments and a recombinant plasmid. Nature 290, 672-677.
  • 4. Haniford, D.B. & Pulleyblank, D.E. (1983) Facile transition of poly[d(TG)F255>d(CA)] into a left-handed helix in physiological conditions. Nature 302, 632-634.
  • 5. Peck, L.J., Nordheim, A., Rich, A. & Wang, J.C. (1982) Flipping of cloned d(pCpG)n d(pCpG)n DNA sequences from right- to left- handed helical structure by salt, Co(III), or negative supercoiling. Proc. Natl. Acad. Sci. U.S.A. 79, 4560-4564.
  • 6. Pohl, F.M. & Jovin, T.M. (1972) Salt-induced co-operative conformational change of a synthetic DNA: Equilibrium and kinetic studies with poly (dG-dC). J. Mol. Biol. 67, 375-396.
  • 7. Behe, M. & Felsenfeld, G. (1981) Effects of methylation on a synthetic polynucleotide: The B-Z transition in poly(dG-m5dC) poly(dG-m5dC). Proc. Natl. Acad. Sci. U.S.A. 78, 1619-1623.
  • 8. Singleton, C.K., Klysik, J., Stirdivant, S.M. & Wells, R.D. (1982) Left-handed Z-DNA is induced by supercoiling in physiological ionic conditions. Nature 299, 312-316.
  • 9. Peck, L.J. & Wang, J.C. (1983) Energetics of B-to-Z transition in DNA. Proc. Natl. Acad. Sci. U.S.A. 80, 6206-6210.
  • 10. Ellison, M.J., Kelleher, R.J. 3rd., Wang, A.H.-J., Habener, J.F. & Rich, A. (1985) Sequence-dependent energetics of the B-Z transition in supercoiled DNA containing nonalternating purine-pyrimidine sequences. Proc. Natl. Acad. Sci. U.S.A. 82, 8320-8324.
  • 11. McLean, M.J., Blaho, J.A., Kilpatrick, M.W. & Wells, R.D. (1986) Consecutive A F255> T pairs can adopt a left-handed DNA structure. Proc. Natl. Acad. Sci. U.S.A. 83, 5884-5888.
  • 12. Ellison, M.J., Feigon, J., Kelleher, R.J. 3rd., Wang, A.H.-J., Habener, J.F. & Rich, A. (1986) An assessment of the Z-DNA forming potential of alternating dA-dT stretches in supercoiled plasmids. Biochemistry 25, 3648-3655.
  • 13. Ho, P.S., Ellison, M.J., Quigley, G.J. & Rich, A. (1986) A computer aided thermodynamic approach for predicting the formation of Z-DNA in naturally occurring sequences. EMBO J. 5, 2737-2744.
  • 14. Liu, L.F. & Wang, J.C. (1987) Supercoiling of the DNA template during transcription. Proc. Natl. Acad. Sci. U.S.A. 84, 7024-7027.
  • 15. Schroth, G.P., Chou, P.J. & Ho, P.S. (1992) Mapping Z-DNA in the human genome. Computer-aided mapping reveals a nonrandom distribution of potential Z-DNA-forming sequences in human genes. J. Biol. Chem. 267, 11846-11855.
  • 16. Palecek, E., Rasovska, E. & Boublikova, P. (1988) Probing of DNA polymorphic structure in the cell with osmium tetroxide. Biochem. Biophys. Res. Commun. 150, 731-738.
  • 17. Zheng, G.X., Kochel, T., Hoepfner, R.W., Timmons, S.E. & Sinden, R.R. (1991) Torsionally tuned cruciform and Z-DNA probes for measuring unrestrained supercoiling at specific sites in DNA of living cells. J. Mol. Biol. 221, 107-122.
  • 18. Jaworski, A., Hsieh, W.-T., Blaho, J.A., Larson, J.E. & Wells, R.D. (1987) Left-handed DNA in vivo. Science 238, 773-777.
  • 19. Rahmouni, A.R. & Wells, R.D. (1989) Stabilization of Z DNA in vivo by localized supercoiling. Science 246, 358-363.
  • 20. Jaworski, A., Higgins, N.P., Wells, R.D. & Zacharias, W. (1991) Topoisomerase mutants and physiological conditions control supercoiling and Z-DNA formation in vivo. J. Biol. Chem. 266, 2576-2581.
  • 21. Krasilnikov, A.S., Podtelezhnikov, A., Vologodskii, A. & Mirkin, S.M. (1999) Large- scale effects of transcriptional DNA supercoiling in vivo. J. Mol. Biol. 292, 1149-1160.
  • 22. Lafer, E.M., Moller, A., Nordheim, A., Stollar, B.D. & Rich, A. (1981) Antibodies specific for left-handed Z-DNA. Proc. Natl. Acad. Sci. U.S.A. 78, 3546-3550.
  • 23. Lafer, E.M., Valle, R.P., Moller, A., Nordheim, A., Schur, P.H., Rich, A. & Stollar, B.D. (1983) Z-DNA-specific antibodies in human systemic lupus erythematosus. J. Clin. Invest. 71, 314-321.
  • 24. Nordheim, A., Pardue, M.L., Lafer, E.M., Moller, A., Stollar, B.D. & Rich, A. (1981) Antibodies to left-handed Z-DNA bind to interband regions of Drosophila polytene chromosomes. Nature 294, 417-422.
  • 25. Lancillotti, F., Lopez, M.C., Arias, P. & Alonso, C. (1987) Z-DNA in transcriptionally active chromosomes. Proc. Natl. Acad. Sci. U.S.A. 84, 1560-1564.
  • 26. Hill, R.J. (1991) Z-DNA: A prodrome for the 1990s. J. Cell Sci. 99, 675-680.
  • 27. Lipps, H.J., Nordheim, A., Lafer, E. M., Ammermann, D., Stollar, B.D. & Rich, A. (1983) Antibodies against Z DNA react with the macronucleus but not the micronucleus of the hypotrichous ciliate Stylonychia mytilus. Cell 32, 435-441.
  • 28. Gruskin, E.A. & Rich, A. (1993) B-DNA to Z-DNA structural transitions in the SV40 enhancer: Stabilization of Z-DNA in negatively supercoiled DNA minicircles. Biochemistry 32, 2167-2176.
  • 29. Jackson, D.A. & Cook, P.R. (1985) A general method for preparing chromatin containing intact DNA. EMBO J. 4, 913-918.
  • 30. Jackson, D.A., Yuan, J. & Cook, P.R. (1988) A gentle method for preparing cyto- and nucleo- skeletons and associated chromatin. J. Cell Sci. 90, 365-378.
  • 31. Wittig, B., Dorbic, T. & Rich, A. (1989) The level of Z-DNA in metabolically active, permeabilized mammalian cell nuclei is regulated by torsional strain. J. CellBiol.108, 755-764.
  • 32. Wittig, B., Dorbic, T. & Rich, A. (1991) Transcription is associated with Z-DNA formation in metabolically active permeabilized mammalian cell nuclei. Proc. Natl. Acad. Sci. U.S.A. 88, 2259-2263.
  • 33. Wittig, B., Wolfl, S., Dorbic, T., Vahrson, W. & Rich, A. (1992) Transcription of human c-mycin permeabilized nuclei is associated with formation of Z-DNA in three discrete regions of the gene. EMBO J. 11, 4653-4663.
  • 34. Wolfl, S., Wittig, B. & Rich, A. (1995) Identification of transcriptionally induced Z-DNA segments in the human c-myc gene. Biochim. Biophys. Acta 1264, 294-302.
  • 35. Wolfl, S., Martinez, C., Rich, A. & Majzoub, J.A. (1996) Transcription of the human corticotropin-releasing hormone gene in NPLC cells is correlated with Z-DNA formation. Proc. Natl. Acad. Sci. U.S.A. 93, 3664-3668.
  • 36. Peck, L.J. & Wang, J.C. (1985) Transcriptional block caused by a negative supercoiling induced structural change in an alternating CG sequence. Cell 40, 129-137.
  • 37. Rich, A. (1994) Speculation on the biological roles of left-handed Z-DNA. Ann. NY Acad. Sci. 726, 1-16; discussion 16-17.
  • 38. Pohl, F.M. (1967) [A model of the DNA structure]. Naturwissenschaften 54, 616.
  • 39. Treco, D. & Arnheim, N. (1986) The evolutionarily conserved repetitive sequence d(TGF255>AC)n promotes reciprocal exchange and generates unusual recombinant tetrads during yeast meiosis. Mol. Cell. Biol. 6, 3934- 3947.
  • 40. Bullock, P., Miller, J. & Botchan, M. (1986) Effects of poly[d(pGpT)F255>d(pApC)] and poly[d(pCpG) d(pCpG)] repeats on homologous recombination in somatic cells. Mol. Cell. Biol. 6, 3948-3953.
  • 41. Wahls, W.P., Wallace, L.J. & Moore, P.D. (1990) The Z-DNA motif d(TG)30 promotes reception of information during gene conversion events while stimulating homologous recombination in human cells in culture. Mol. Cell. Biol. 10, 785-793.
  • 42. Garner, M.M. & Felsenfeld, G. (1987) Effect of Z-DNA on nucleosome placement. J. Mol. Biol. 196, 581-590.
  • 43. Wolfl, S., Vahrson, W. & Herbert, A.G. (1995) Analysis of left-handed Z-DNA in vivo; in DNA and Nucleoprotein Structure in vivo (Salus, H.P. & Wiebauer, K., eds.) pp. 137-159, R.G. Landes Co., Austin.
  • 44. Krishna, P., Kennedy, B.P., Waisman, D.M., van de Sande, J.H. & McGhee, J.D. (1990) Are many Z-DNA binding proteins actually phospholipid-binding proteins? Proc. Natl. Acad. Sci. U.S.A. 87, 1292-1295.
  • 45. Rohner, K.J., Hobi, R. & Kuenzle, C.C. (1990) Z-DNA-binding proteins. Identification critically depends on the proper choice of ligands. J. Biol. Chem. 265, 19112-19115.
  • 46. Herbert, A., Lowenhaupt, K., Spitzner, J. & Rich, A. (1995) Chicken double-stranded RNA adenosine deaminase has apparent specificity for Z-DNA. Proc. Natl. Acad. Sci. U.S.A. 92, 7550-7554.
  • 47. Schwartz, T., Lowenhaupt, K., Kim, Y.-G., Li, L., Brown, B.A., 2nd, Herbert, A. & Rich, A. (1999) Proteolytic dissection of Zab, the Z-DNA-binding domain of human ADAR1. J. Biol. Chem. 274, 2899-2906.
  • 48. Herbert, A.G., Spitzner, J.R., Lowenhaupt, K. & Rich, A. (1993) Z-DNA binding protein from chicken blood nuclei. Proc. Natl. Acad. Sci. U.S.A. 90, 3339-3342.
  • 49. Herbert, A., Alfken, J., Kim, Y.G., Mian, I.S., Nishikura, K. & Rich, A. (1997) A Z-DNA binding domain present in the human editing enzyme, double-stranded RNA adenosine deaminase. Proc. Natl. Acad. Sci. U.S.A. 94, 8421- 8426.
  • 50. Herbert, A., Schade, M., Lowenhaupt, K., Alfken, J., Schwartz, T., Shlyakhtenko, L.S., Lyubchenko, Y.L. & Rich, A. (1998) The Za domain from human ADAR1 binds to the Z-DNA conformer of many different sequences. Nucleic Acids Res. 26, 3486-3493.
  • 51. Schade, M., Behlke, J., Lowenhaupt, K., Herbert, A., Rich, A. & Oschkinat, H. (1999) A 6 bp Z-DNA hairpin binds two Za domains from the human RNA editing enzyme ADAR1. FEBS Lett. 458, 27-31.
  • 52. Melcher, T., Maas, S., Herb, A., Sprengel, R., Seeburg, P.H. & Higuchi, M. (1996) A mammalian RNA editing enzyme. Nature 379, 460- 464.
  • 53. Bass, B.L. (1993) RNA editing: New uses for old players in the RNA world; in The RNA World (Gesteland, R.F. & Atkins, J.F., eds.) pp. 383-418, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
  • 54. Wagner, R.W. & Nishikura, K. (1988) Cell cycle expression of RNA duplex unwindase activity in mammalian cells. Mol. Cell. Biol. 8, 770-777.
  • 55. Herbert, A. (1996) RNA editing, introns and evolution. Trends Genetics 12, 6-9.
  • 56. Maas, S. & Rich, A. (2000) Changing genetic information through RNA editing. Bioessays 22, 790-802.
  • 57. Sommer, B., Kohler, M., Sprengel, R. & Seeburg, P.H. (1991) RNA editing in brain controls a determinant of ion flow in glutamate-gated channels. Cell 67, 11-19.
  • 58. Lomeli, H., Mosbacher, J., Melcher, T., Hoger, T., Geiger, J.R., Kuner, T., Monyer, H., Higuchi, M., Bach, A. & Seeburg, P.H. (1994) Control of kinetic properties of AMPA receptor channels by nuclear RNA editing. Science 266, 1709-1713.
  • 59. Burns, C.M., Chu, H., Rueter, S.M., Hutchinson, L.K., Canton, H., Sanders-Bush, E. & Emeson, R.B. (1997) Regulation of serotonin-2C receptor G-protein coupling by RNA editing. Nature 387, 303-308.
  • 60. Ma, J., Qian, R., Rausa, F.M., 3rd, & Colley, K.J. (1997) Two naturally occurring alpha2,6-sialyltransferase forms with a single amino acid change in the catalytic domain differ in their catalytic activity and proteolytic processing. J. Biol. Chem. 272, 672-679.
  • 61. Kask, K., Zamanillo, D., Rozov, A., Burnashev, N., Sprengel, R. & Seeburg, P.H. (1998) The AMPA receptor subunit GluR-B in its Q/R site-unedited form is not essential for brain development and function. Proc. Natl. Acad. Sci. U.S.A. 95, 13777-13782.
  • 62. Higuchi, M., Single, F.N., Kohler, M., Sommer, B., Sprengel, R. & Seeburg, P.H. (1993) RNA editing of AMPA receptor subunit GluR-B: A base-paired intron-exon structure determines position and efficiency. Cell 75, 1361-1370.
  • 63. Schwartz, T., Shafer, K., Lowenhaupt, K., Hanlon, E., Herbert, A. & Rich, A. (1999) Crystallization and preliminary studies of the DNA-binding domain Za from ADAR1 complexed to left-handed DNA. Acta Crystallogr. D Biol. Crystallogr. 55, 1362-1364.
  • 64. Schwartz, T., Rould, M.A., Lowenhaupt, K., Herbert, A. & Rich, A. (1999) Crystal structure of the Zalpha domain of the human editing enzyme ADAR1 bound to left-handed Z-DNA. Science 284, 1841-1845.
  • 65. Patterson, J.B. & Samuel, C.E. (1995) Expression and regulation by interferon of a double-stranded RNA-specific adenosine deaminase from human cells: Evidence for two forms of the deaminase. Mol. Cell. Biol. 15, 5376-5388.
  • 66. Cattaneo, R. & Billeter, M.A. (1992) Mutations and A/I hypermutations in measles virus persistent infections. Curr. Top. Microbiol. Immunol. 176, 63-74.
  • 67. Cattaneo, R. (1994) Biased (AF255>I) hypermutation of animal RNA virus genomes. Curr. Opin. Genet. Dev. 4, 895-900.
  • 68. Bass, B.L. (1997) RNA editing and hypermutation by adenosine deamination. Trends Biochem. Sci. 22, 157-162.
  • 69. Jacobs, B.L. & Langland, J.O. (1996) When two strands are better than one: The mediators and modulators of the cellular responses to double-stranded RNA. Virology 219, 339- 349.
  • 70. Hall, K., Cruz, P., Tinoco, I., Jr., Jovin, T.M. & van de Sande, J.H. (1984) Z-RNA'-a left-handed RNA double helix. Nature 311, 584-586.
  • 71. Teng, M.K., Liaw, Y.C., van der Marel, G.A., van Boom, J.H. & Wang, A.H. (1989) Effects of the O2' hydroxyl group on Z-DNA conformation: Structure of Z-RNA and (araC)- [Z-DNA]. Biochemistry 28, 4923-4928.
  • 72. Davis, P.W., Adamiak, R.W. & Tinoco, I., Jr. (1990) Z-RNA: The solution NMR structure of r(CGCGCG). Biopolymers 29, 109-122.
  • 73. Tinoco, I., Jr., Cruz, P., Davis, P.W., Hall, K., Hardin, C.C., Mathies, R.A., Puglisi, J.D., Trulson, M.O., Johnson, W.C., Jr. & Neilson, T. (1986) Z-RNA: A left-handed double helix; in Structure and Dynamics of RNA (van Knippenberg, P.H. & Hilbers, C.W., eds.) pp. 55-66, Plenum, New York.
  • 74. Klump, H.H. & Jovin, T.M. (1987) Formation of a left-handed RNA double helix: Energetics of the A-Z transition of poly[r(G-C)] in concentrated NaClO4 solutions. Biochemistry 26, 5186-5190.
  • 75. Olson, W.K. & Sussman, J.L. (1982) How flexible is the furanose ring? 1. A comparison of experimental and theoretical studies. J. Am. Chem. Soc. 104, 207-278.
  • 76. Sanger, W. (1984) Principles of Nucleic Acid Structure; in Springer Advanced Texts in Chemistry (Cantor, C. R., ed.) Springer-Verlag, New York.
  • 77. Brown, B.A., 2nd, Lowenhaupt, K., Wilbert, C.M., Hanlon, E. & Rich, A. (2000) The Zalpha domain of the editing enzyme dsRNA adenosine deaminase binds left-handed Z-RNA as well as Z-DNA. Proc. Natl. Acad. Sci. U.S.A. 97, 13532-13536.
  • 78. Zarling, D.A., Calhoun, C.J., Hardin, C.C. & Zarling, A.H. (1987) Cytoplasmic Z-RNA. Proc. Natl. Acad. Sci. U.S.A. 84, 6117-6121.
  • 79. Wang, A.J., Quigley, G.J., Kolpak, F.J., van der Marel, G., van Boom, J.H. & Rich, A. (1981) Left-handed double helical DNA: Variations in the backbone conformation. Science 211, 171-176.

Typ dokumentu

Bibliografia

Identyfikatory

Identyfikator YADDA

bwmeta1.element.agro-article-133e478a-bdad-42c4-8b8e-e4c5a2ab9f98
JavaScript jest wyłączony w Twojej przeglądarce internetowej. Włącz go, a następnie odśwież stronę, aby móc w pełni z niej korzystać.