Stability and transformations of bis-pna/dna triplex structural isomers

Journal of Biomolecular Structure and Dynamics

Volumn 21, Issue 4, 2004, Pages 503-512

  Krupnik, Olga V ^a   Fadeeva, Natalia V ^a   Kvitko, Nina P ^a   Shepelev, Valerii A ^a   Nielsen, Peter E ^b   Lazurkin, Yurii S ^a  

^a INSTITUTE OF MOLECULAR GENETICS   (Russian Federation)

^b UNIVERSITY OF COPENHAGEN   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; DOUBLE STRANDED DNA; PEPTIDE NUCLEIC ACID; PYRIMIDINE; SINGLE STRANDED DNA;

ARTICLE; COMPLEX FORMATION; DNA BINDING; DNA STRUCTURE; ELECTROPHORETIC MOBILITY; ISOMER; KINETICS; MODEL; MOLECULAR STABILITY; POLYACRYLAMIDE GEL ELECTROPHORESIS; PRIORITY JOURNAL;

EID: 1642555981     PISSN: 07391102     EISSN: 15380254     Source Type: Journal    
DOI: 10.1080/07391102.2004.10506944     Document Type: Article

References (29)

1. Nielsen, P. E., Egholm, M., Berg, R. H., and Buchardt, O., 1991. Science, 254:1497–1500.
2. Nielsen, P. E., and Egholm, M., eds. 1999. Peptide Nucleic Acids. Protocols and Applications. Norfolk:Horizon Scientific Press.
3. Kuhn, H., Demidov, V. V., Nielsen, P. E., and Frank-Kamenetskii, M. D., 1999. J. Mol. Biol., 286:1337–1345.
4. Cherny, D. I., Belotserkovskii, B. P., Frank-Kamenetskii, M. D., Egholm, M., Buchardt, O., Berg, R. H., and Nielsen, P. E., 1993. Proc. Natl. Acad. Sci. USA, 90:1667–1670.
5. Nielsen, P. E., Egholm, M., and Buchardt, O., 1994. J. Molec. Recognition, 7:165–170.
6. Demidov, V. V., Yavnilovich, M. V., Belotserkovskii, B. P., Frank-Kamenetskii, M. D., and Nielsen, P. E., 1995. Proc. Natl. Acad. Sci. USA, 92:2637–2641.
7. Demidov, V. V., Cherny, D. I., Kurakin, A. V., Yavnilovich, M. V., Malkov, V. A., Frank-Kamenetskii, M. D., Sönnichsen, S. H., and Nielsen, P. E., 1994. Nucl. Acids Res., 22:5218–5222.
8. Møllegaard, N. E., Buchardt, O., Egholm, M., and Nielsen, P. E., 1994. Proc. Natl. Acad. Sci. USA, 91:3892–3895.
9. Demidov, V. V., Frank-Kamenetskii, M. D., and Nielsen, P. E., 1996. Biomolecular Structure and Dynamics Edited by:Sarma, R. H., and Sarma, M. N., Vol. 2, 129–134. New York:Adenine Press.
10. Kosaganov, Yu. N., Stetsenko, D. A., Lubyako, E. N., Kvitko, N. P., Lazurkin, Yu. S., and Nielsen, P. E., 2000. Biochemistry, 39:11742–11747.
11. Krupnik, O. V., Guscho, Yu. A., Sluchanko, K. A., Nielsen, P. E., and Lazurkin, Yu. S., 2001. J. Biomol. Struct. Dyn., 19:535–542.
12. Betts, L., Josey, J. A., Veal, J. M., and Jordan, S. R., 1995. Science, 270:1838–1841.
13. Demidov, V. V., Yavnilovich, M. V., and Frank-Kamenetskii, M. D., 1997. Biophys. J., 72:2763–2769.
14. Lomakin, A., and Frank-Kamenetskii, M. D., 1998. J. Mol. Biol., 276:57–70.
15. Dueholm, K. L., and Nielsen, P. E., 1997. New J. Chem, 21:19–31.
16. Hyrup, B., and Nielsen, P. E., 1996. Bioorg. and Med. Chem., 4:5–23.
17. Veselkov, A. G., Demidov, V. V., Frank-Kamenetskii, M. D., and Nielsen, P. E., 1996. Nature, 379:214
18. Krasilnikova, M. M., Izvolskii, K. I., Krupnik, O. V., and Lazurkin, Yu. S., 1995. Dokl. Biochem., 344:156–159. translated from Dokl. Acad. Nauk 344, 552–555 (1995)
19. Belotserkovskii, B. P., and Zarling, D. A., 2002. Biochemistry, 41:3686–3692.
20. Good, L., and Nielsen, P. E., 1998. Nature Biotechnology, 16:355–358.
21. Demidov, V. V., 2002. Expert Rev. Anticancer Ther., 2:89–91.
22. Hansen, G. I., Bentin, T., Larsen, H. J., and Nielsen, P. E., 2001. J. Mol. Biol., 307:67–74.
23. Krupnik, O. V., Fadeeva, N. V., and Lazurkin, Yu. S., Molecular Biology, 36236–238. (2002); translated from Molekulyarnaya biologiya 36, 312–314 (2002)
24. It is proposed in (22) that the band II. (S2) may contain two isomers similar in structure and not resolvable by electrophoresis. This assumption should be kept in mind as the designations S1, S2 and S3 in this paper correspond both to the bands and the isomeric complexes
25. Egholm, M., Christensen, L., Dueholm, K. L., Buchardt, O., Coull, J., and Nielsen, P. E., 1995. Nucl. Acids Res., 23:217–222.
26. Christensen, L., Fitzpatrik, R., Gildea, B., Petersen, K. H., Hansen, H. F., Koch, T., Egholm, M., Buchardt, O., Nielsen, P. E., Coull, J., and Berg, R. H., 1995. J. Peptide Sci., 3:175–183.
27. Haaima, G., Lohse, A., Buchardt, O., and Nielsen, P. E., 1996. Angewandte Chemie, Int. Ed. Engl., 35:1939–1941.
28. Under fraction of complex we understand. the ratio of the amount of radioactivity corresponding to the given complex to the total amount of radioactivity of all complexes in the sample
29. In case of dsDNA. the lifetime of the stabilized isomer S1 noticeably exceeds the lifetime of the isomer S2 (see Table I)