Solution structure of a DNA double helix with consecutive metal-mediated base pairs

Nature Chemistry

Volumn 2, Issue 3, 2010, Pages 229-234

  Johannsen, Silke ^a   Megger, Nicole ^b   Böhme, Dominik ^b   Sigel, Roland K O ^a   Müller, Jens ^b  

^a UNIVERSITY OF ZURICH   (Switzerland)

^b UNIVERSITY OF MÜNSTER   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; IMIDAZOLE; IMIDAZOLE DERIVATIVE; OLIGODEOXYRIBONUCLEOTIDE; SILVER;

ARTICLE; BASE PAIRING; CHEMICAL STRUCTURE; CHEMISTRY; DRUG EFFECT; GENETICS; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEOTIDE SEQUENCE; SOLUTION AND SOLUBILITY;

BASE PAIRING; BASE SEQUENCE; DNA; IMIDAZOLES; MAGNETIC RESONANCE SPECTROSCOPY; MODELS, MOLECULAR; OLIGODEOXYRIBONUCLEOTIDES; SILVER; SOLUTIONS;

EID: 77649091169     PISSN: 17554330     EISSN: 17554349     Source Type: Journal    
DOI: 10.1038/nchem.512     Document Type: Article

References (40)

1. Niemeyer, C. M. & Mirkin, C. A. Nanobiotechnology (Wiley-VCH, 2004).
2. Müller, J. Metal-ion-mediated base pairs in nucleic acids. Eur. J. Inorg. Chem. 3749-3763 (2008).
3. Tanaka, K. & Shionoya, M. Programmable metal assembly on bio-inspired templates. Coord. Chem. Rev. 251, 2732-2742 (2007).
4. Clever, G. H., Kaul, C. & Carell, T. DNA-metal base pairs. Angew. Chem. Int. Ed. 46, 6226-6236 (2007).
5. He, W., Franzini, R. M. & Achim, C. Metal-containing nucleic acid structures based on synergetic hydrogen and coordination bonding. Prog. Inorg. Chem. 55, 545-611 (2007).
6. Weizman, H. & Tor, Y. 2,2'-Bipyridine Ligandoside: A novel building block for modifying DNA with intra-duplex metal complexes. J. Am. Chem. Soc. 123, 3375-3376 (2001).
7. Meggers, E., Holland, P. L., Tolman, W. B., Romesberg, F. E. & Schultz, P. G. A novel copper-mediated DNA base pair. J. Am. Chem. Soc. 122, 10714-10715 (2000).
8. Heuberger, B. D., Shin, D. & Switzer, C. Two Watson-Crick-like metallo basepairs. Org. Lett. 10, 1091-1094 (2008).
9. Polonius, F.-A. & Müller, J. An artificial base pair, mediated by hydrogen bonding and metal-ion binding. Angew. Chem. Int. Ed. 46, 5602-5604 (2007).
10. Clever, G. H. & Carell, T. Controlled stacking of 10 transition-metal ions inside a DNA duplex. Angew. Chem. Int. Ed. 46, 250-253 (2007).
11. Switzer, C., Sinha, S., Kim, P. H. & Heuberger, B. D. A purine-like nickel(II) base pair for DNA. Angew. Chem. Int. Ed. 44, 1529-1532 (2005). (Pubitemid 40460050)
12. Tanaka, K., Tengeiji, A., Kato, T., Toyama, N. & Shionoya, M. A discrete selfassembled metal array in artificial DNA. Science 299, 1212-1213 (2003).
13. Tanaka, K. et al. Programmable self-assembly of metal ions inside artificial DNA duplexes. Nature Nanotech. 1, 190-194 (2006).
14. Tanaka, Y. et al. 15N-15N J-coupling across HgII: Direct observation of HgIImediated T-T base pairs in a DNA duplex. J. Am. Chem. Soc. 129, 244-245 (2007).
15. Ono, A. et al. Specific interactions between Ag(I) ions and cytosine-cytosine pairs in DNA duplexes. Chem. Commun. 4825-4827 (2008).
16. Wettig, S. D., Wood, D. O., Aich, P. & Lee, J. S. M-DNA: A novel metal ion complex of DNA studied by fluorescence techniques. J. Inorg. Biochem. 99, 2093-2101 (2005).
17. Johannsen, S., Paulus, S., Düpre, N., Müller, J. & Sigel, R. K. O. Using in vitro transcription to construct scaffolds for one-dimensional arrays of mercuric ions. J. Inorg. Biochem. 102, 1141-1151 (2008).
18. Schlegel, M. K., Zhang, L., Pagano, N. & Meggers, E. Metal-mediated base pairing within the simplified nucleic acid GNA. Org. Biomol. Chem. 7, 476-482 (2009).
19. Franzini, R. M. et al. Metal binding to bipyridine-modified PNA. Inorg. Chem. 45, 9798-9811 (2006).
20. Küsel, A. et al. Metal binding within a peptide-based nucleobase stack with tuneable double-strand topology. Eur. J. Inorg. Chem. 4317-4324 (2005).
21. Atwell, S., Meggers, E., Spraggon, G. & Schultz, P. G. Structure of a coppermediated base pair in DNA. J. Am. Chem. Soc. 123, 12364-12367 (2001).
22. Schlegel, M. K., Essen, L.-O. & Meggers, E. Duplex structure of a minimal nucleic acid. J. Am. Chem. Soc. 130, 8158-8159 (2008).
23. Boḧme, D., Düpre, N., Megger, D. A. & Müller, J. Conformational change induced by metal-ion-binding to DNA containing the artificial 1,2,4-triazole nucleoside. Inorg. Chem. 46, 10114-10119 (2007).
24. Kuklenyik, Z. & Marzilli, L. G. Mercury(II) site-selective binding to a DNA hairpin. Relationship of sequence-dependent intra- and interstrand cross-linking to the hairpin-duplex conformational transition. Inorg. Chem. 35, 5654-5662 (1996).
25. Varani, G., Aboul-ela, F. & Allain, F. H.-T. NMR investigation of RNA structure. Prog. Nucl. Magn. Reson. Spectrosc. 29, 51-127 (1996).
26. Tanaka, Y. & Ono, A. Nitrogen-15 NMR spectroscopy of N-metallated nucleic acids: insights into 15N NMR parameters and N-metal bonds. Dalton Trans. 4965-4974 (2008).
27. Zangger, K. & Armitage, I. M. Silver and gold NMR. Met. Based Drugs 6, 239-245 (1999).
28. Bowmaker, G. A. et al. Solid-state 109Ag CP/MAS NMR spectroscopy of some diammine silver(I) complexes. Magn. Reson. Chem. 42, 819-826 (2004).
29. van Stein, G. C., van Koten, G., Vrieze, K., Brevard, C. & Spek, A. L. Structural investigations of silver(I) and copper(I) complexes with neutral N4 donor ligands: X-ray crystal and molecular structure of the dimer [Ag2fm-(R, S)-1,2- (py-2-CH=N)2Cyg2](O3SCF3)2 and 1H, 13C, and INEPT 109Ag and 15N NMR solution studies. J. Am. Chem. Soc. 106, 4486-4492 (1984).
30. van Stein, G. C. et al. Group 11 metal ions in poly(donor atom) environments: X-ray crystal and molecular structure of [M((R, S)-1,2-(5-R-thio-2-CH=N)2-c- Hx)2](O3SCF3) (M= Ag(I), R = Me, thio = Thiophene, c-Hx = Cyclohexane) and silver(I) and copper(I) coordination properties in solution (1H, 109Ag, and 15N NMR). Inorg. Chem. 24, 1367-1375 (1985).
31. Lu, X.-J. & Olson, W. K. 3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures. Nucleic Acids Res. 31, 5108-5121 (2003).
32. Chandrasekaran, R. & Arnott, S. The structure of B-DNA in oriented fibers. J. Biomol. Struct. Dyn. 13, 1015-1027 (1996).
33. Liu, X. et al. Three novel silver complexes with ligand-unsupported argentophilic interactions and their luminescent properties. Inorg. Chem. 45, 3679-3685 (2006).
34. Mallajosyula, S. S. & Pati, S. K. Conformational tuning of magnetic interactions in metal-DNA complexes. Angew. Chem. Int. Ed. 48, 4977-4981 (2009).
35. Gridnev, A. A. & Mihalteva, I. M. Synthesis of 1-alkylimidazoles. Synth. Commun. 24, 1547-1555 (1994).
36. Rolland, V., Kotera, M. & Lhomme, J. Convenient preparation of 2-deoxy-3,5-di- O-p-toluoyl-a-D-erythro-pentofuranosyl chloride. Synth. Commun. 27, 3505-3511 (1997).
37. Güntert, P., Mumenthaler, C. & Wüthrich, K. Torsion angle dynamics for NMR structure calculation with the new program DYANA. J. Mol. Biol. 273, 283-298 (1997).
38. Schwieters, C. D., Kuszewski, J. J., Tjandra, N. & Clore, G. M. The Xplor-NIH NMR molecular structure determination package. J. Magn. Reson. 160, 65-73 (2003).
39. Müller, J., Boḧme, D., Lax, P., Morell Cerdà, M. & Roitzsch, M. Metal ion coordination to azole nucleosides. Chem. Eur. J. 11, 6246-6253 (2005).
40. Koradi, R., Billeter, M. & Wüthrich, K. MOLMOL: A program for display and analysis of macromolecular structures. J. Mol. Graphics 14, 51-55 (1996).