Bulletin of the Korean Chemical Society

  • 제4권3호
  • /
  • Pages.133-139
  • /
  • 1983
  • /
  • 0253-2964(pISSN)
  • /
  • 1229-5949(eISSN)
대한화학회 (Korean Chemical Society)
권호 표지
DOI QR코드

DOI QR Code

Conformational Study of Y-Base in Yeast tRNA$^{phe}$

  • Moon, Myung-Jun (Department of Chemistry, Korea Advanced Institute of Science and Technology) ;
  • Jhon, Mu-Shik (Department of Chemistry, Korea Advanced Institute of Science and Technology) ;
  • Kang, Young-Kee (Department of Chemistry, College of Natural Sciences, Chungbuk National University.)
  • 발행 : 1983.06.20
PDF 다운로드
⟨ 이전 논문 다음 논문 ⟩

초록

To understand the importance of Y-base adjacent to the anticodon stabilizing codon-anticodon interaction, a study has been undertaken for the model compound involving the interaction between Y-base and anticodon as well as the participation of water molecule by calculating the conformational free energy using an empirical potential function. We restrict our analysis to sites directly associated with Y-base by varying only the backbone torsion angles of Y-base. The hydration and $Mg^{+2}$ binding effects on the conformational stability of Y-base are calculated and discussed. The free Y-base is proved to be less stable than the hydrated one. The free energy change due to the hydration of Y-base amounts to -119.5 kcal/mole, in which the conformational energy change is -142.4 kcal/mole and the configurational entropy change is -76.9 e. u. It is found that the water molecules bound to Y-base and $Mg^{+2}$ contribute to the conformation of Y-base dominantly.

키워드

참고문헌

  1. Ann. Rev. Biochem. v.45 A. Rich;U. L. RajBhandary
  2. Biochim. Biophys. Acta. v.565 K. Kim;M. S. Jhon
  3. Bull. Korean Chem. Soc. v.2 K. O. Koh;M. S. Jhon
  4. Bull. Korean Chem. Soc. v.2 Y. K. Kang;M. S. Jhon
  5. Bull. Korean Chem Soc. v.3 Y. J. Park;Y. K. Kang;B. J. Yoon;M. S. Jhon
  6. Biopolymers C. N. Yoon;Y. K. Kang;M. S. Jhon
  7. Ph. D., Thesis, Korean Advanced institute of Science and Technology Y. K. Kang
  8. J. Chem. Soc. G. Del Re
  9. Biochim. Biophys. Acta. v.75 G. Del Re;B. Pullman;T. Yonezawa
  10. Computing Methods in Quantum Organic Chemistry H. H. Greenwood
  11. Conformational Properties of Mactromolecules A. J. Hopfinger
  12. Molecular Biology of the Gene J. D. Watson
  13. Adv. Chem. Phys. v.2 K. S. Pitzer
  14. Ann. Rev. Biophys. Bioeng. v.1 D. A. Brant
  15. Theoret. Chim. Acta(Berl.) v.61 Y. K. Kang;M. S. Jhon
  16. Internal Rotation in Molecules W. J. Orville-Thomas(ed.)
  17. Introduction to Mathematical Statistics R. V. Hogg;A. T. Craig
  18. Macromolecules v.14 M. Karplus;J. N. Kushick
  19. CRC Crit. Rev. Biochem. v.9 M. Karplus;A. MaCammon
  20. J. Mol. Biol. v.123 J. L. Sussman;S. R. Holbrook;R. W. Warrant;G. M. Church;S. H. Kim
  21. Water; A. Comprehensive Treatise v.3 H. L. Friedman;C. V. Krishnan;F. Franks(ed.)
  22. The New World of Quantum Chemistry A. Pullman;B. Pullman(ed.);R. Parr(ed.)
  23. Transfer RNA S. Nishimura;S. Altman(Ed.)
  24. Proc. Natl. Acad. Sci. USA v.75 G. J. Quigley;M. M. Teeter;A. Rich
  25. Nucleic Acid-Matal Ion Interactions M. M. Teeter;G. J. Quigley;A. Rich;T. G. Spiro(Ed.)
  26. A. E. R. E. Report R7125 Fortran Subroutines for Minimization by Quasi-Newton Methods R. Fletcher
  27. J. Mol. Biol. v.123 S. R. Holbrook;J. L. Sussman;R. W. Warrant;S. H. Kim
  28. Handbook of Chemistry and Physics R. C. Weast(ed.)
  29. J. Phys. Chem. v.76 M. J. Huron;P. Claverie
  30. Transfer RNA S. H. Kim;S. Altman(Ed.)
  31. Biochemistry v.14 R. Langlois;S. H. Kim;C. R. Cantor
  32. J. Bio. Chem. v.246 B. Robinson;T. P. Zimmerman
  33. Eur. J. Biochem. v.55 R. Romer;R. Hach
  34. Eur. J. Biochem. v.74 J. L. Leroy;M. Gueron;G. Thomas;A. Favre
  35. Biochemistry v.21 D. Labuda;D. Porschke

피인용 문헌

  1. Conformational study of the trinucleotide CpGpCp‐pentapeptide Gly5 complex: The important role of bridging water in the complex formation vol.7, pp.2, 1983, https://doi.org/10.1002/jcc.540070212
  2. Studies on hydroxy inclusion complexes. I. Host-guest interaction of the molecular complexes of 9-hydroxy-9-(1-propynyl) fluorene and 1,1-Bis (2,4-dimethylphenyl)-2-butyn-1-ol with water, methanol, et vol.5, pp.5, 1983, https://doi.org/10.1007/bf00662996