How to study DNA and proteins by linear dichroism spectroscopy

Science Progress

Volumn 91, Issue 4, 2008, Pages 377-396

  Rodger, Alison ^a  

^a UNIVERSITY OF WARWICK   (United Kingdom)

Author keywords

DNA; Linear dichroism; Proteins

Indexed keywords

EID: 58149489298     PISSN: 00368504     EISSN: None     Source Type: Journal    
DOI: 10.3184/003685008X395517     Document Type: Article

References (31)

1. Rajendra, J., Baxendale, M., Dit Rap, L.G. and Rodger, A. (2004) Flow linear dichroism to probe binding of aromatic molecules and DNA to single walled carbon nanotubes. J. Am. Chem. Soc., 126, 11182-11188.
2. Rajendra, J. and Rodger, A. (2005) The binding of single stranded DNA and PNA to single walled carbon nanotubes probed by flow linear dichroism. Chem. Eur J., 11, 4841-4848.
3. Marrington, R., Dafforn, T.R., Halsall, D.J. and Rodger, A. (2004) Micro volume Couette flow sample orientation for absorbance and fluorescence linear dichroism. Biophys. J., 87, 2002-2012.
4. Couette, M. (1890) Ann. Chim. Phys., 6, 433-510.
5. Mallock, A. (1988) Proc. R. Soc. Lond., 1898, 45, 126.
6. Mallock, A. (1896) Phil. Trans. R. Soc. Lond., Ser, A, 1896, 187, 41.
7. Donnelly, R.J. Phys. Today, 1991, November, 32-39.
8. Taylor, G.I. (1923) Proc. R. Soc. Lond. Ser A, 223, 289-343.
9. Taylor, G.I. (1936) Proc. R. Soc. Lond. Ser A, 157, 546-564.
10. Taylor, G.I. (1936) Proc. R. Soc. Lond. Ser A, 157, 565-578.
11. Rodger, A. (1993) Meth. Enzymol., 226, 232-258.
12. Rodger, A., Rajendra, J., Marrington, R., Ardhammar, M., Nordén, B., Hirst, J.D., Gilbert, A.T.B., Dafforn, T.R., Halsall, D.J., Woolhead, C.A., Robinson, C., Pinheiro, T.J., Kazlauskaite, J., Seymour, M., Perez, N. and Hannon, M.J. (2002) Phys. Chem. Chem. Phys., 4, 4051-4057.
13. Albinsson, B. and Nordén, B. (1992) J. Phys. Chem., 96, 6204-6212.
14. Holmen, A., Broo, A., Albinsson, B. and Nordén, B. (1997) J. Am. Chem. Soc., 119, 12240-12250.
15. Dafforn, T.R., Rajendra, J., Halsall, D.J., Serpell, L.C. and Rodger, A. (2004) Biophys. J., 86, 404-410.
16. Nordén, B., Kubista, M. and Kuruscev, T. (1992) Q. Rev. Biophys., 25, 51-170.
17. Nordén, B. (1978) Appl. Spectrosc. Rev., 14, 157-248.
18. Meistermann, I., Moreno, V, Prieto, M.J., Molderheim, E., Sletten, E., Khalid, S., Rodger, P.M., Peberdy, J., Isaac, C.J., Rodger, A. and Hannon, M.J. (2002) Intramolecular DNA coiling mediated by metallo-supramolecular cylinders: differential binding of P and M helical enantiomers. Proc. Natl Acad. Sci. USA, 99, 5069-5074.
19. McDonnell, U., Hicks, M.R., Hannon, MJ and Rodger, A. (2008) DNA binding and bending by dinuclear complexes comprising ruthenium polypyridyl centres linked by a bis(pyridylimine) ligand. J. Inorg. Biochem., 102, 2052-2059.
20. Pingoud, A., Fuxreiter, M., Pingoud, V and Wende, W. (2005) Type II restriction endonucleases: structure and mechanism. Cell. Mol. Life Sci., 62, 685-707.
21. Sambrook, J., Fritsch, E.F. and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, New York.
22. Kettling, U, Koltermann, A., Schwille, P. and Eigen, M. (1998) Real-time enzyme kinetics monitored by dual-color fluorescence cross-correlation spectroscopy. Proc. Natl. Acad. Sci. USA, 95, 1416-20.
23. Waters, T.R. and Connolly, B.A. (1992) Continuous spectrophotometric assay for restriction endonucleases using synthetic oligodeoxynucleotides and based on the hyperchromic effect. Analyt. Biochem., 204, 204-209.
24. Marrington, R., Small, E., Rodger, A., Dafforn, T.R. and Addinall, S.G. (2004) FtsZ fibre bundling is triggered by a calcium-induced conformational change in bound GTP. J. Biol. Chem., 47, 48821-48829.
25. Small, E., Marrington, R., Rodger, A., Scott, D.J., Sloan. K., Roper, D., Dafforn, T.R. and Addinall, S.G. (2007) FtsZ polymer-bundling by the Escherichia coli ZapA orthologue, YgfE involves a conformational change in bound GTP. J Mol. Biol., 369, 211-221.
26. Marrington, R., Seymour, M. and Rodger, A. (2006) A new method for fibrous protein analysis illustrated by application to tubulin microtubule polymerisation and depolymerisation. Chirality, 18, 680-690.
27. van Amerongen, H. and van Grondelle, R. (1989) Orientation of the bases of single-stranded DNA and polynucleotides in complexes formed with the gene 32 protein of bacteriophage T4. A linear dichroism study. J. Mol. Biol., 209, 433-445..
28. Ardhammar, M., Mikati, N. and Nordén, B. (1998) Chromophore Orientation in Liposome Membranes Probed with Flow Linear Dichroism. J. Am. Chem. Soc., 120, 9957-9958.
29. Rodger, A., Rajendra, J., Marrington, R., Ardhammar, M., Nordén, B., Hirst, J.D., Gilbert, A.T.B., Dafforn, T.R., Halsall, D.J., Woolhead, C.A., Robinson, C., Pinheiro, T.J., Kazlauskaite, J., Seymour, M., Perez, N. and Hannon, M.J. (2002) Flow oriented linear dichroism to probe protein orientation in membrane environments. Phys. Chem. Chem. Phys., 4, 4051-4057.
30. Oesterhelt, D. and Stoeckenius, W. (1971) Rhodospin-like protein from the purple membrane of Halobacterium halobium. Nature New Biol., 233, 149-152.
31. Henderson, R., Baldwin, J.M., Ceska, T.A., Zemlin, F., Beckmann, E. and Downing, K.H. (1990) Model for the structure of bacteriorhodopsin based on high-resolution electron cryo-microscopy. J. Mol. Biol., 213, 899-929.