Journal of Chemical Physics
The Journal of Chemical Physics
Search:
   
 
 
 
Previous Article
Theoretical method for full ab initio calculation of DNA/RNA–ligand interaction energy
In this paper, we further develop the molecular fractionation with conjugate caps (MFCC) scheme for quantum mechanical computation of DNA–ligand interaction energy. We study three oligonuclear ac...
Next Article
An adaptive immune optimization algorithm for energy minimization problems
Based on the immune theory of biology, a novel evolutionary algorithm, adaptive immune optimization algorithm (AIOA), is proposed. In AIOA, density regulation and immune selection is adopted to contro...

Fast semiempirical calculations for nuclear magnetic resonance chemical shifts: A divide-and-conquer approach

J. Chem. Phys. 120, 11392 (2004); doi:10.1063/1.1752877

Issue Date: 22 June 2004

You are not logged in to this journal. Log in

Bing Wang, Edward N. Brothers, Arjan van der Vaart, and Kenneth M. Merz, Jr.
Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802
A new approach to calculate nuclear magnetic resonance chemical shifts has been implemented at the semiempirical modified neglect of diatomic overlap level using gauge-including atomic orbitals. The perturbed density matrix with respect to the magnetic field is obtained by the diagonalization of the complex Fock matrix using the divide and conquer (DC) method, instead of by solving the computationally expensive coupled perturbed Hartree–Fock equations. Adopting the Patchkovskii and Thiel parameters [S. Patchkovskii and W. Thiel J. Comput. Chem. 20, 1220 (1999)], we were able to reproduce their results for small organic molecules. The errors introduced by DC method are negligible, as shown by the calculations on a series of polyalaine structures. Test calculations on proteins have demonstrated that our approach makes it possible to calculate chemical shifts routinely on systems with hundreds of atoms with good accuracy. ©2004 American Institute of Physics.
History: Received 13 February 2004; accepted 30 March 2004
Permalink: http://link.aip.org/link/?JCPSA6/120/11392/1
BUY THIS ARTICLE   (US$24)
Download HTML Download Sectioned HTML Download PDF (133 kB) View Cart

KEYWORDS and PACS

Keywords
PACS
  • 33.25.+k
    Nuclear resonance and relaxation in molecules
  • 82.56.Pp
    NMR of chemical processes in biomolecules
  • 31.15.Ct
    Semi-empirical and empirical calculations (atoms and molecules) including differential overlap, Hückel, PPP methods, etc
  • YEAR: 2004

RELATED DATABASES


To view database links for this article,
you need to log in.
To view database links for this article,
you need to log in.

PUBLICATION DATA

ISSN:
0021-9606 (print)   1089-7690 (online)
Publisher:
AIP is a member of CrossRef AIP

REFERENCES (28)

For access to fully linked references, you need to log in. For access to fully linked references, you need to Log in.
  1. K. Wuthrich, NMR of Proteins and Nucleic Acids (Wiley, New York, 1986).
  2. S. Spera and A. Bax, J. Am. Chem. Soc. 113, 5490 (1991).
  3. E. R. Zuiderweg, Biochemistry 41, 1 (2002).
  4. S. B. Shuker, P. J. Hajduk, R. P. Meadows, and S. W. Fesik, Science 274, 1531 (1996).
  5. K. Osapay and D. A. Case, J. Am. Chem. Soc. 113, 9436 (1991).
  6. D. Sitkoff and D. A. Case, J. Am. Chem. Soc. 119, 12262 (1997).
  7. M. Iwadate, T. Asakura, and M. P. Williamson, J. Biomol. NMR 13, 199 (1999).
  8. X. P. Xu and D. A. Case, J. Biomol. NMR 21, 321 (2001).
  9. K. Wolinski, J. F. Hinton, and P. Pulay, J. Am. Chem. Soc. 112, 8251 (1990).
  10. J. Pople, Mol. Phys. 34, 7 (1968).
  11. P. D. M. Ellis and G. E. McIver, Jr., J. Am. Chem. Soc. 94, 4069 (1972).
  12. H. Fukui, K. Miura, and A. Hirai, J. Magn. Reson. (1969-1992) 67, 328 (1986).
  13. M. J. S. Dewar and W. Thiel, J. Am. Chem. Soc. 99, 4899 (1977).
  14. W. X. Wu, X. Z. You, and A. B. Dai, Sci. Sin., Ser. B (Engl. Ed.) 31, 1048 (1988).
  15. S. Patchkovskii and W. Thiel, J. Comput. Chem. 20, 1220 (1999).
  16. J. K. Pople, R. Schlegel, and H. B. Binkley, Int. J. Quantum Chem. S13, 225 (1979).
  17. S. L. Dixon and K. M. Merz, J. Chem. Phys. 104, 6643 (1996).
  18. S. L. Dixon and K. M. Merz, J. Chem. Phys. 107, 879 (1997).
  19. W. T. Yang and T. S. Lee, J. Chem. Phys. 103, 5674 (1995).
  20. R. Ditchfield, Mol. Phys. 27, 789 (1974).
  21. F. London, J. Phys. Radium 8, 397 (1937).
  22. W. F. Kutzelnigg and U. Schindler, NMR Basic Principles Progress 23, 165 (1990).
  23. B. Wang, J. F. Hinton, and P. Pulay, J. Comput. Chem. 23, 492 (2002).
  24. S. L. Dixon, A. van der Vaart, V. Gogonea, J. J. Vincent, E. N. Brothers, D. Suarez, L. M. Westerhoff, and K. M. Merz, Jr., DivCon (The Pennsylvania State University, University Park, PA, 1999).
  25. ETO Multicenter Molecular Integrals, edited by C. A Weatherford and H. W. Jones (Reidel, Dordrecht, 1982).
  26. S. Obara and A. Saika, J. Chem. Phys. 84, 3963 (1986).
  27. J. Nowakowski, J. L. Miller, P. A. Kollman, and I. Tinoco, J. Am. Chem. Soc. 118, 12812 (1996).
  28. R. Montserret, M. J. McLeish, A. Bockmann, C. Geourjon, and F. Penin, Biochemistry 39, 8362 (2000).

CITING ARTICLES

For access to citing articles, you need to log in.
For access to citing articles, you need to Log in.