Dependence of the raman signature of genomic B-DNA on nucleotide base sequence

Biopolymers

Volumn 50, Issue 6, 1999, Pages 656-666

  Deng, Hong ^a   Bloomfield, Victor A ^a   Benevides, James M ^b   Thomas Jr , George J ^b  

^a UNIVERSITY OF MINNESOTA   (United States)

^b UNIVERSITY OF MISSOURI KANSAS CITY   (United States)

Author keywords

Base pairing; Base sequence; Base stacking; DNA structure; Raman markers; Vibrational assignments

Indexed keywords

CONFORMATIONS; MICROORGANISMS; MOLECULAR VIBRATIONS; PHOSPHATES; RAMAN SPECTROSCOPY; SENSITIVITY ANALYSIS; SPECTROSCOPIC ANALYSIS; STRUCTURE (COMPOSITION);

CLOSTRIDIUM PERFRINGENS; DEOXYADENOSINE; GENOMES; MICROCOCCUS LUTEUS; PURINE; PYRIMIDINE; RAMAN DIFFERENCE METHOD; VIBRATIONAL SPECTRA;

DNA SEQUENCES;

ARTICLE; BASE PAIRING; DNA BASE COMPOSITION; DNA STRUCTURE; NUCLEOTIDE SEQUENCE; RAMAN SPECTROMETRY; SEQUENCE ANALYSIS; STRUCTURE ANALYSIS;

ANIMALS; BASE COMPOSITION; BASE SEQUENCE; CATTLE; CLOSTRIDIUM PERFRINGENS; DNA; DNA, BACTERIAL; ESCHERICHIA COLI; GENOME; GENOME, BACTERIAL; MICROCOCCUS LUTEUS; SPECTRUM ANALYSIS, RAMAN;

EID: 0032722226     PISSN: 00063525     EISSN: None     Source Type: Journal    
DOI: 10.1002/(SICI)1097-0282(199911)50:6<656::AID-BIP10>3.0.CO;2-9     Document Type: Article

References (38)

1. Crothers, D. M.; Haran, T. E.; Nadeau, J. G. J Biol Chem 1990, 165, 7093-7096.
2. Allemann, R. K.; Egli, M. Chem Biol 1997, 4, 643-650.
3. Dickerson, R. E.; Goodsell, D.; Kopka, M. L. J Mol Biol 1996, 256, 108-125.
4. Perez-Martin, J.; de Lorenzo, V. Annu Rev Microbiol 1997, 51, 593-628.
5. Bloomfield, V. A. Curr Opin Struct Biol 1996, 6, 334-341.
6. Fujimoto, B. S.; Schurr, J. M. Nature 1990, 344, 175-178.
7. Hustedt, E. J.; Spaltenstein, A.; Kirchner, J. J.; Hopkins, P. B.; Robinson, B. H. Biochemistry 1993, 32, 1774-1787.
8. Olson, W. K.; Babcock, M. S.; Gorin, A.; Liu, G.; Marky, N. L.; Martino, J. A.; Pedersen, S. C.; Srinivasan, A. R.; Tobias, I.; Westcott, T. P. Biophys Chem 1995, 55, 7-29.
9. Schurr, J. M.; Fujimoto, B. S.; Wu, P. L.; Song, L. In Topics in Fluorescence Spectroscopy, Vol. 3; Lakowicz, J. R., Ed.; Plenum Press: New York, 1992; pp 137-229.
10. Olson, W. K.; Gorin, A. A.; Lu, X.-J.; Hock, L. M.; Zhurkin, Z. B. Proc Natl Acad Sci USA 1998, 95, 11163-11168.
11. Wartell, R. M.; Harrell, J. T. Biochemistry 1986, 25, 2664-2671.
12. Thomas, G. J., Jr.; Benevides, J. M.; Prescott, B. In Biomolecular Stereodynamics, Vol. IV; Sarma, R. H., Sarma, M. H., Eds.; Adenine Press: Guilderland, NY, 1986; pp 227-253.
13. Thomas, G. J., Jr.; Tsuboi, M. In Advances in Biophysical Chemistry, Vol. 3; Bush, C. A., Ed.; JAI Press: Greenwich, CT, 1993; pp 1-70.
14. Peticolas, W. L.; Kubasek, W. L.; Thomas, G. A.; Tsuboi, M. In Biological Applications of Raman Spectroscopy, Vol. 1; Spiro, T. G., Ed.; John Wiley & Sons: New York, 1987; pp 81-133.
15. Peticolas, W. L. In Methods in Enzymology, Vol. 246; Sauer, K., Ed.; Academic Press: New York, 1995; pp 389-416.
16. Duguid, J.; Bloomfield, V. A.; Benevides, J. M.; Thomas, G. J., Jr. Biophys J 1993, 65, 1916-1928.
17. Duguid, J.; Bloomfield, V. A.; Benevides, J. M.; Thomas, G. J., Jr. Biophys J 1995, 69, 2623-2641.
18. Duguid, J.; Bloomfield, V. A.; Benevides, J. M.; Thomas, G. J., Jr. Biophys J 1996, 71, 3350-3360.
19. Reilly, K. E.; Thomas, G. J., Jr. J Mol Biol 1994, 241, 68-82.
20. Tuma, R.; Bamford, J. K. H.; Bamford, D. H.; Thomas, G. J., Jr. J Mol Biol 1996, 257, 102-115.
21. Dong, J.; Dinakarpandian, D.; Carey, P. R. Appl Spectrosc 1998, 52, 1117-1122.
22. Overman, S. A.; Thomas, G. J., Jr. Biochemistry 1998, submitted.
23. Guan, Y.; Choy, G. S.-C.; Glaser, R.; Thomas, G. J., Jr. J Phys Chem 1995, 99, 12054-12062.
24. Guan, Y.; Thomas, G. J., Jr. Biopolymers 1996, 39, 813-835.
25. Erfurth, S. C.; Kiser, E. J.; Peticolas, W. L. Proc Natl Acad Sci USA 1972, 69, 938-941.
26. Prescott, B.; Steinmetz, W.; Thomas, G. J., Jr. Biopolymers 1984, 23, 235-256.
27. Thomas, G. J., Jr.; Benevides, J. M.; Overman, S. A.; Ueda, T.; Ushizawa, K.; Saitoh, M.; Tsuboi, M. Biophys J 1995, 68, 1073-1088.
28. Thomas, G. J., Jr.; Benevides, J. M. Biopolymers 1985, 24, 1101-1105.
29. Saenger, W. Principles of Nucleic Acid Structure; Springer-Verlag: New York, 1984.
30. Benevides, J. M.; Wang, A. H.-J.; Rich, A.; Kyogoku, Y.; van der Marel, G. A.; van Boom, J. H.; Thomas, G. J., Jr. Biochemistry 1986, 25, 41-50.
31. Benevides, J. M.; Wang, A. H.-J.; van der Marel, G. A.; van Boom, J. H.; Thomas, G. J., Jr. Biochemistry 1988, 27, 931-938.
32. Benevides, J. M.; Wang, A. H.-J.; van der Marel, G. A.; van Boom, J. H.; Thomas, G. J., Jr. Biochemistry 1989, 28, 304-310.
33. Small, E. W.; Peticolas, W. L. Biopolymers 1971, 10, 69-88.
34. Small, E. W.; Peticolas, W. L. Biopolymers 1971, 10, 1377-1416.
35. Lord, R. C.; Thomas, G. J., Jr. Spectrochim Acta 1967, 23A, 2551-2591.
36. Tsuboi, M.; Komatsu, M.; Hoshi, J.; Kawashima, E.; Sekine, T.; Ishido, Y.; Russell, M. P.; Benevides, J. M.; Thomas, G. J., Jr. J Am Chem Soc 1997, 119, 2025-2032.
37. Toyama, A.; Takeuchi, H.; Harada, I. J Mol Struct 1991, 242, 87-98.
38. Josse, J.; Kaiser, A. D.; Kornberg, A. J Biol Chem 1961, 236, 864-875.