Structure monomorphism of RNA G-quadruplex that is independent of surrounding condition

Journal of Biotechnology

Volumn 150, Issue 1, 2010, Pages 6-10

  Zhang, Dong Hao ^a   Zhi, Gao Ying ^a  

^a HEBEI UNIVERSITY   (China)

Author keywords

Molecular crowding conditions; Parallel antiparallel G quadruplexes; RNA G quadruplex; Thermodynamics

Indexed keywords

BIOLOGICAL FUNCTIONS; G-QUADRUPLEX STRUCTURE; G-QUADRUPLEXES; MOLECULAR CROWDING; RNA SEQUENCES; STRUCTURAL FORM; STRUCTURAL POLYMORPHISMS; UV- AND;

DNA; GENES; NUCLEIC ACIDS; RNA; STRUCTURAL ANALYSIS; THERMODYNAMICS;

DNA SEQUENCES;

CATION; GUANINE QUADRUPLEX; NUCLEIC ACID; POTASSIUM ION; RNA; SODIUM ION;

ARTICLE; CHEMICAL STRUCTURE; DNA POLYMORPHISM; DNA SEQUENCE; PRIORITY JOURNAL; RNA SEQUENCE; STRUCTURE ANALYSIS; THERMODYNAMICS; ULTRAVIOLET RADIATION;

CIRCULAR DICHROISM; DNA; ELECTROPHORESIS, POLYACRYLAMIDE GEL; G-QUADRUPLEXES; GENES, BCL-2; HUMANS; NUCLEIC ACID CONFORMATION; POTASSIUM CHLORIDE; RNA; THERMODYNAMICS;

EID: 77957334049     PISSN: 01681656     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbiotec.2010.07.026     Document Type: Article

References (22)

1. Ambrus A., Chen D., Dai J., Bialis T., Jones R., Yang D. Human telomeric sequence forms a hybrid-type intramolecular G-quadruplex structure with mixed parallel/antiparallel strands in potassium solution. Nucleic Acids Res. 2006, 34:2723-2735.
2. Danial N.N., Korsmeyer S.J. Cell death. Cell 2004, 116:205-219.
3. Darnell J.C., Jensen K.B., Jin P., Brown V., Warren S.T., Darnell R.B. Fragile X mental retardation protein targets G-quartet mRNAs important for neuronal function. Cell 2001, 107:489-499.
4. Dexheimer T.S., Sun D., Hurley L.H. Deconvoluting the structural and drug-recognition complexity of the G-quadruplex-forming region upstream of the bcl-2 P1 promoter. J. Am. Chem. Soc. 2006, 128:5404-5415.
5. Kikin O., D'Antonio L., Bagga P.S. QGRS mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences. Nucleic Acids Res. 2006, 34:w676-w682.
6. Kumari S., Bugaut A., Huppert J.L., Balasubramanian S. An RNA G-quadruplex in the 5'-UTR of the NRAS proto-oncogene modulates translation. Nat. Chem. Biol. 2007, 3:218-221.
7. Li J., Correia J.J., Wang L., Trent J.O., Chaires J.B. Not so crystal clear: the structure of the human telomere G-quadruplex in solution differs from that present in a crystal. Nucleic Acids Res. 2005, 33:4649-4659.
8. Negrini M., Sillini E., Kozak C., Tsujimoto Y., Croce C.M. Molecular analysis of mbcl-2: structure and expression of the murine gene homologous to the human gene involved in follicular lymphoma. Cell 1987, 49:455-463.
9. Parkinson G.N., Lee M.P., Neidle S. Crystal structure of parallel quadruplexes from human telomeric DNA. Nature 2002, 417:876-880.
10. Petersheim M., Turner D.H. Base-stacking and base-pairing contributions to helix stability: thermodynamics of double-helix formation with CCCG, CCGGp, CCGGAp, ACCGGp, CCGGUp, and ACCGGUp. Biochemistry 1983, 22:256-263.
11. Phan A.T., Kuryavyi V., Burge S., Neidle S., Patel D.J. Structure of an unprecedented G-quadruplex scaffold in the human c-kit promoter. J. Am. Chem. Soc. 2007, 129:4386-4392.
12. Honda M., Ping L.H., Rijnbrand R.C., Amphlett E., Clarke B., Rowlands D., Lemon S.M. Structural requirements for initiation of translation by internal ribosome entry within genome-length hepatitis C virus RNA. Virology 1996, 222:31-42.
13. Qi J., Shafer R.H. Human telomere quadruplex: refolding and selection of individual conformers via RNA/DNA chimeric editing. Biochemistry 2007, 46:7599-7606.
14. Richard E.G. Handbook of Biochemistry and Molecular Biology 1975, CRC Press, Cleveland, OH.
15. Rijnbrand R., Bredenbeek P., Vander Straaten T., Whetter L., Inchauspe G., Lemon S., Spaan W. Almost the entire 5′ non-translated region of hepatitis C virus is required for cap-independent translation. FEBS Lett. 1995, 365:115-119.
16. Sacca B., Lacroix L., Mergny J.-L. The effect of chemical modifications on the thermal stability of different G-quadruplex-forming oligonucleotides. Nucleic Acids Res. 2005, 33:1182-1192.
17. Seenisamy J., Rezler E.M., Powell T.J., Tye D., Gokhale V., Joshi C.S., Siddiqui-Jain A., Hurley L.H. The dynamic character of the G-quadruplex element in the c-MYC promoter and modification by TMPyP4. J. Am. Chem. Soc. 2004, 126:8702-8709.
18. Simonsson T. G-quadruplex DNA structures variations on a theme. Biol. Chem. 2001, 382:621-628.
19. Tang C.-F., Shafer R.H. Engineering the quadruplex fold: nucleoside conformation determines both folding topology and molecularity in guanine quadruplexes. J. Am. Chem. Soc. 2006, 128:5966-5973.
20. Wang C., Sarnow P., Siddiqui A. Translation of human hepatitis C virus RNA in cultured cells is mediated by an internal ribosome-binding mechanism. J. Virol. 1993, 67:3338-3344.
21. Williamson J.R. G-quartet structures in telomeric DNA. Annu. Rev. Biophys. Biomol. Struct. 1994, 23:703-730.
22. Zanotti K.J., Lackey P.E., Evans G.L., Mihailescu M.-R. Thermodynamics of the fragile X mental retardation protein RGG box interactions with G-Quartet forming RNA. Biochemistry 2006, 45:8319-8330.