Efforts toward Expansion of the Genetic Alphabet: Structure and Replication of Unnatural Base Pairs
| العنوان: | Efforts toward Expansion of the Genetic Alphabet: Structure and Replication of Unnatural Base Pairs |
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| المؤلفون: | Steven J. Wilkens, Glen Spraggon, David E. Wemmer, Tammy J. Dwyer, Bernhard H. Geierstanger, Allison A. Henry, Shigeo Matsuda, Priyamrada Rai, Peter G. Schultz, Jeremiah D. Fillo, Floyd E. Romesberg |
| المصدر: | Journal of the American Chemical Society. 129:10466-10473 |
| بيانات النشر: | American Chemical Society (ACS), 2007. |
| سنة النشر: | 2007 |
| مصطلحات موضوعية: | DNA Replication, Magnetic Resonance Spectroscopy, Base pair, DNA polymerase, Stereochemistry, Chemical biology, Crystallography, X-Ray, Biochemistry, Deoxyribonucleotides, Article, Catalysis, Nucleobase, chemistry.chemical_compound, Colloid and Surface Chemistry, Computer Simulation, Base Pairing, Molecular Structure, biology, DNA replication, DNA, General Chemistry, chemistry, biology.protein, Primer (molecular biology) |
| الوصف: | Expansion of the genetic alphabet has been a long-time goal of chemical biology. A third DNA base pair that is stable and replicable would have a great number of practical applications and would also lay the foundation for a semisynthetic organism. We have reported that DNA base pairs formed between deoxyribonucleotides with large aromatic, predominantly hydrophobic nucleobase analogues, such as propynylisocarbostyril (dPICS), are stable and efficiently synthesized by DNA polymerases. However, once incorporated into the primer, these analogues inhibit continued primer elongation. More recently, we have found that DNA base pairs formed between nucleobase analogues that have minimal aromatic surface area in addition to little or no hydrogen-bonding potential, such as 3-fluorobenzene (d3FB), are synthesized and extended by DNA polymerases with greatly increased efficiency. Here we show that the rate of synthesis and extension of the self-pair formed between two d3FB analogues is sufficient for in vitro DNA replication. To better understand the origins of efficient replication, we examined the structure of DNA duplexes containing either the d3FB or dPICS self-pairs. We find that the large aromatic rings of dPICS pair in an intercalative manner within duplex DNA, while the d3FB nucleobases interact in an edge-on manner, much closer in structure to natural base pairs. We also synthesized duplexes containing the 5-methyl-substituted derivatives of d3FB (d5Me3FB) paired opposite d3FB or the unsubstituted analogue (dBEN). In all, the data suggest that the structure, electrostatics, and dynamics can all contribute to the extension of unnatural primer termini. The results also help explain the replication properties of many previously examined unnatural base pairs and should help design unnatural base pairs that are better replicated. |
| تدمد: | 1520-5126 0002-7863 |
| DOI: | 10.1021/ja072276d |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::0802e0786d4775c5a29b94609a4c8c95 https://doi.org/10.1021/ja072276d |
| Rights: | OPEN |
| رقم الانضمام: | edsair.doi.dedup.....0802e0786d4775c5a29b94609a4c8c95 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 15205126 00027863 |
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| DOI: | 10.1021/ja072276d |