DNA interaction with RNase A alters protein conformation

DNA and Cell Biology

Volumn 26, Issue 1, 2007, Pages 28-35

  N'Soukpoe Kossi C N ^a   Ragi, C ^a   Tajmir Riahi, H A ^a  

^a UNIVERSITÉ DU QUÉBEC À TROIS RIVIÈRES   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

CYTOSINE; DNA; GUANINE; NUCLEIC ACID; PHOSPHATE; RIBONUCLEASE A;

ARTICLE; BETA SHEET; BINDING AFFINITY; CIRCULAR DICHROISM; CONFORMATIONAL TRANSITION; DNA ADDUCT; DNA CONFORMATION; DNA RNA HYBRIDIZATION; INFRARED SPECTROSCOPY; NONHUMAN; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN DNA BINDING; PROTEIN DNA INTERACTION; PROTEIN SECONDARY STRUCTURE; STRUCTURE ANALYSIS; ULTRAVIOLET SPECTROSCOPY;

EID: 33846883750     PISSN: 10445498     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (41)

1. AHMED OUAMEUR, A., and TAJMIR-RIAHI, H.A. (2004). Structural analysis of DNA interactions with biogenic polyamines and cobalt(III)hexamine studied by Fourier transform infrared and capillary electrophoresis. J. Biol. Chem. 279, 42041-42054.
2. ALEX, S., and DUPUIS, P. (1989). FTIR and Raman investigation of cadmium binding by DNA. Inorg. Chim. Acta 157, 271-281.
3. ANDREOLA M.-L., PILEUR, F., CALMELS, C., VENTURA, M., TARRAGO-LITVAK, L., TOULMÉ J.-J., and LITVAK, S. (2001). DNA aptamers selected against the HIV-1 RNase H display in vitro antiviral activity. Biochemistry 40, 10087-10094.
4. ANDRUSHCHENKO, V.V., LEONENKO, Z., VAN DE SANDE, H., and WIESER, H. (2002). Vibrational CD (VCD) and atomic force microscopy (AMF) study of DNA interactions: VCD and AFM evidence of DNA condensation. Biopolymers 61, 243-260.
5. BERISIO, R., SICA, F., LAMZIN, V.S., WILSON, K.S., ZAGARI, A., and MAZZARELLA, L. (2002). Atomic resolution structures of ribonuclease A at six pH values. Acta Crystallogr. D 58, 441-450.
6. BYLER, D.M., and SUSI, H. (1986). Examination of the secondary structure of protein by deconvoluted FTIR spectra. Biopolymers 25, 469-487.
7. CHON, H., TSUNAKA, Y., HARUKI, M., MORIKAWA, M., and KANAYA, S. (2002). Site-specific cleavage of MS2 RNA by thermostable DNA-linked RNase H. Protein. Eng. 15, 683-688.
8. D'ALESSIO, G., and RIORDAN, J.F. (1997). Ribonucleases: Structure and Functions. (Academic Press, New York).
9. DICKSON, K.A., DAHLBERG, C.L., and RAINES, T.R. (2003). Compensating effects of the cytotoxicity of ribonuclease A variants. Arch. Biochem. Biophys. 415, 172-177.
10. DOVBESHKO, G.I., CHEGEL, V.I., GRIDINA, N.Y., SHISHOV, O.P., TRYNDIAK, Y.M., TODOR, V.P., and SOLYANIK, G.I. (2002). Surface enhanced IR absorption of nucleic acids from tumor cells: FTIR reflectance study. Biospectroscopy 67, 470-486.
11. FISHER, B.M., SCHULTZ, L.W., and RAINES, R.T. (1998). Coulombic effects of remote-subsites on the active site of ribonuclease A. Biochemistry 37, 17386-17401.
12. FONTECCILLA-CAMPS, J.C., DE LIORENS, R., LE DU, M.H., and CUCHILLO, C.M. (1994). Crystal structure of ribonuclease A.d(ApTpApApG) complex. J. Biol. Chem. 269, 21526-21531.
13. GAUDREAU, S., NOVETTA-DELLEN, A., NEAULT, J.F., DIAMANTOGLOU, S., and TAJMIR-RIAHI, H.A. (2003). 3′-Azido-3′-deoxythymidine binding to ribonuclease A: Model for drug-protein interaction. Biopolymers (Biospectroscopy) 72, 435-441.
14. HAIGIS, M.C., KURTEN, E.L., ABEL, R.L., and RAINES, R.T. (2002). KFERQ sequence in ribonuclease A-mediated cytotoxicity. J. Biol. Chem. 277, 11576-11582.
15. HARUKI, M., NOGAWA, T., HIRANO, N., CHON, H., TSUNAKI, Y., MORIKAWA, M., and KANAYA, S. (2000). Efficient cleavage of RNA at high temperature by thermostable DNA-linked ribonuclease H. Protein. Eng. 13, 881-886.
16. JOHNSON, W.C. (1999). Analyzing protein circular dichroism spectra for accurate secondary structure Proteins. Struct. Funct. Genet. 35, 307-312.
17. KANKIA, B.I., BUKIN, V., and BLOOMFILED, V.A. (2001). Hexamine cobalt(III)-induced condensation of calf-thymus DNA: Circular dichroism and hydration measurements. Nucleic Acids Res. 29, 2795-2801.
18. KRIMM, S., and BANDEKAR, J. (1986). Vibrational spectroscopy and conformation of peptides, polypeptides, and proteins. Adv. Protein Chem. 38, 181-364.
19. KRYNETSKAIA, N.F., KRYNETSKI, E.Y., and EVANS, W.E. (1999). Human RNase H-mediated RNA cleavage from DNA-RNA duplexes is inhibited by 6-deoxy-thioguanosine incorporation into DNA. Mol. Pharmacol. 56, 841-848.
20. KYPR, J., and VORLICKOVA, M. (2002). Circular dichroism spectroscopy reveals invariant conformation of guanine runs in DNA. Biopolymers (Biospectroscopy) 67, 275-277.
21. LELAND, P.A., SCHULTZ, L.W., KIM, B.-M., and RAINES, T. (1998). Ribonulcease A variants with potent cytotoxic activity. Proc. Natl. Acad. Sci. USA 95, 10407-10412.
22. LEONIDAS, D.D., CHAVALI, G.B., OIKONOMAKOS, N.G., CHRYSINA, E.D., KOSMOPOULOU, M.N., VLASSI, M., FRANKLIN, C., and ACHARYA, K.R. (2003). High-resolution crystal structures of ribonuclease A complexed with adenylic and uridylic nucleotide inhibitors. Implications for structure-based design of ribonucleolytic inhibitors. Protein Sci. 12, 2559-2574.
23. LIMA, W.F., and CROOKE, S.T. (1997). Cleavage of single stranded RNA adjacent to RNA-DNA duplex regions by Escherichia coli RNase H. J. Biol. Chem. 272, 27513-27516.
24. MALIN, G., IAKOBASHVILI, R., and LAPIDOT A. (1999). Effect of tetrahydropyrimidine derivatives on protein-nucleic acids interaction: Type II restriction endonucleases as a model system. J. Biol. Chem. 274, 6920-6929.
25. MALONGA, H., ARAKAWA, H., NEAULT, J.F., and TAJMIR-RIAHI, H.A. (2006a). DNA interaction with human serum albumin studied by affinity capillary electrophoresis and FTIR spectroscopy. DNA Cell Biol. 25, 63-68.
26. MALONGA, H., NEAULT, J.F., and TAJMIR-RIAHI, H.A. (2006b). Transfer RNA binding to human serum albumin: A model for protein-RNA interaction. DNA Cell Biol. 25, 393-398.
27. MATOUSEK, J., GOTTE, G., POUCKOVA, P., SOUCEK, J., SLAVIK, T., VOTTARIELLO, F., and LIBONATTI, M. (2003). Antitumor activity and other biological actions of oligomers of ribonuclease A. J. Biol. Chem. 278, 23817-23822.
28. NEIRA, J.L., SEVILLA, P., MARGARITA, M.A., MARTA, B., and MANUEL, R. (1999). Hydrogen exchange in ribonuclease A and ribonuclease S: Evidence for residual structure in the unfolded state under native condition. J. Mol. Biol. 285, 627-643.
29. PANFENG, F., CHEN, J., TIAN, Y., WATKINS, T., CUI, X., and ZHAO, B. (2005). Anti-tumor effect of hematopoietic cells carrying the gene of ribonuclease inhibitor. Cancer Gene Ther. 12, 268-275.
30. PODESTA, A., INDRIERI, M., BROGIOLI, D., MANNING, G.S., MILANI, P., GUERRA, R., FINZI, L., and DUNLAP, D. (2005). Positively charged surfaces increase the flexibility of DNA. Biophys. J. 89, 2558-2563.
31. RAINES, R.T. (1999). Ribonuclease A. Chem. Rev. 98, 1045-1065.
32. REICHMANN, M.E., RICE, S.A., THOMAS, C.A., and DOTY, P. (1954). A further examination of the molecular weight and size of deoxypentose nucleic acid. J. Am. Chem. Soc. 76, 3047-3053.
33. SESHARDI, S., OBERG, K.A., and FINK, A.L. (1994). Thermally denatured ribonuclease A retains secondary structure as shown by FTIR. Biochemistry 33, 1351-1355.
34. SOUCEK, J., RAINES, T.R., HAUGG, M., RAILLARD-YONN, S.A., and BENNER, S.A. (1999). Structural changes of ribonuclease A and their effects on biological activity. Comp. Biochem. Physiol. Part C 123, 103-111.
35. SREERAMA, N., and WODDY, R.W. (2000). Estimation of protein secondary structure from circular dichroism spectra: Comparison of CONTIN, SELCON and CDSSTR methods with an expanded reference set. Anal. Biochem. 287, 252-260.
36. STEPHANOS, J.J. (1996). Drug-protein interactions. Two-site binding of heterocylclic ligands to a monomeric hemoglobin. J. Inorg. Biochem. 62, 155-169.
37. TAILLANDIER, E., and LIQUIER, J. (1992). Infrared spectroscopy of DNA. Methods Enzymol. 211, 307-335.
38. VIJAYALAKSHMI, R., KANTHIMATHI, M., and SUBRAMANIAN, V. (2000). DNA cleavage by a chromium(III) complex. Biochem. Biophys. Res. Commun. 271, 731-734.
39. VORLICKOVA, M. (1995). Conformational transitions of alternating purin-pyrimidin DNAs in perchlorate ethanol solutions Biophys. J. 69, 2033-2043.
40. 2O solutions. J. Mol. Struct. 242, 235-244.
41. ZHONG, W., WANG, Y., YU, J.-S., LIANG, Y., NI, K., and TU, S. (2004). The interaction of human serum albumin with a novel an-tidiabetic agent-SU-118. J. Pharm. Sci. 93, 1039-1046.