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Volumn 39, Issue 2, 2011, Pages 635-640

DNA acting like RNA

Author keywords

G quadruplex; i motif; RNA; Secondary DNA structure

Indexed keywords

DNA; DNA TOPOISOMERASE; GUANINE QUADRUPLEX; ION; RNA;

EID: 79953214116     PISSN: 03005127     EISSN: 14708752     Source Type: Journal    
DOI: 10.1042/BST0390635     Document Type: Review
Times cited : (11)

References (51)
  • 1
    • 0000474342 scopus 로고
    • Evidence for 2-chain helix in crystalline structure of sodium deoxyribonucleate
    • Franklin, R.E. and Gosling, R.G. (1953) Evidence for 2-chain helix in crystalline structure of sodium deoxyribonucleate. Nature 172, 156-157
    • (1953) Nature , vol.172 , pp. 156-157
    • Franklin, R.E.1    Gosling, R.G.2
  • 2
    • 0038497542 scopus 로고
    • A structure for deoxyribose nucleic acid
    • Watson, J.D. and Crick, F.H. (1953) A structure for deoxyribose nucleic acid. Nature 171, 737-738
    • (1953) Nature , vol.171 , pp. 737-738
    • Watson, J.D.1    Crick, F.H.2
  • 3
    • 0019318942 scopus 로고
    • High-salt d(CpGpCpG), a left-handed Z′ DNA double helix
    • Drew, H., Takano, T., Tanaka, S., Itakura, K. and Dickerson, R.E. (1980) High-salt d(CpGpCpG), a left-handed Z′ DNA double helix. Nature 286, 567-573
    • (1980) Nature , vol.286 , pp. 567-573
    • Drew, H.1    Takano, T.2    Tanaka, S.3    Itakura, K.4    Dickerson, R.E.5
  • 4
    • 38849132828 scopus 로고    scopus 로고
    • The functional response of upstream DNA to dynamic supercoiling in vivo
    • Kouzine, F., Sanford, S., Elisha-Feil, Z. and Levens, D. (2008) The functional response of upstream DNA to dynamic supercoiling in vivo. Nat. Struct. Mol. Biol. 15, 146-154
    • (2008) Nat. Struct. Mol. Biol. , vol.15 , pp. 146-154
    • Kouzine, F.1    Sanford, S.2    Elisha-Feil, Z.3    Levens, D.4
  • 5
    • 0015527119 scopus 로고
    • Salt-induced co-operative conformational change of a synthetic DNA: Equilibrium and kinetic studies with poly (dG-dC)
    • Pohl, F.M. and Jovin, T.M. (1972) Salt-induced co-operative conformational change of a synthetic DNA: equilibrium and kinetic studies with poly (dG-dC). J. Mol. Biol. 67, 375-396
    • (1972) J. Mol. Biol. , vol.67 , pp. 375-396
    • Pohl, F.M.1    Jovin, T.M.2
  • 6
    • 34347231949 scopus 로고    scopus 로고
    • Supercoil-driven DNA structures regulate genetic transactions
    • Kouzine, F. and Levens, D. (2007) Supercoil-driven DNA structures regulate genetic transactions. Front. Biosci. 12, 4409-4423
    • (2007) Front. Biosci. , vol.12 , pp. 4409-4423
    • Kouzine, F.1    Levens, D.2
  • 7
    • 0018689799 scopus 로고
    • Molecular structure of a left-handed double helical DNA fragment at atomic resolution
    • DOI 10.1038/282680a0
    • Wang, A.H., Quigley, G.J., Kolpak, F.J., Crawford, J.L., van Boom, J.H., van der Marel, G. and Rich, A. (1979) Molecular structure of a left-handed double helical DNA fragment at atomic resolution. Nature 282, 680-686 (Pubitemid 10217542)
    • (1979) Nature , vol.282 , Issue.5740 , pp. 680-686
    • Wang, A.H.J.1    Quigley, G.J.2    Kolpak, F.J.3
  • 8
    • 0024510279 scopus 로고
    • Topology and formation of triple-stranded H-DNA
    • Htun, H. and Dahlberg, J.E. (1989) Topology and formation of triple-stranded H-DNA. Science 243, 1571-1576 (Pubitemid 19090505)
    • (1989) Science , vol.243 , Issue.4898 , pp. 1571-1576
    • Htun, H.1    Dahlberg, J.E.2
  • 9
    • 72249093969 scopus 로고    scopus 로고
    • The i-motif in the bcl-2 P1 promoter forms an unexpectedly stable structure with a unique 8:5:7 loop folding pattern
    • Kendrick, S., Akiyama, Y., Hecht, S.M. and Hurley, L.H. (2009) The i-motif in the bcl-2 P1 promoter forms an unexpectedly stable structure with a unique 8:5:7 loop folding pattern. J. Am. Chem. Soc. 131, 17667-17676
    • (2009) J. Am. Chem. Soc. , vol.131 , pp. 17667-17676
    • Kendrick, S.1    Akiyama, Y.2    Hecht, S.M.3    Hurley, L.H.4
  • 10
    • 0021771017 scopus 로고
    • Thermodynamics of the ColE1 cruciform: Comparisons between probing and topological experiments using single topoisomers
    • Lilley, D.M. and Hallam, L.R. (1984) Thermodynamics of the ColE1 cruciform: comparisons between probing and topological experiments using single topoisomers. J. Mol. Biol. 180, 179-200
    • (1984) J. Mol. Biol. , vol.180 , pp. 179-200
    • Lilley, D.M.1    Hallam, L.R.2
  • 11
    • 47849105417 scopus 로고    scopus 로고
    • Structures, folding patterns, and functions of intramolecular DNA G-quadruplexes found in eukaryotic promoter regions
    • Qin, Y. and Hurley, L.H. (2008) Structures, folding patterns, and functions of intramolecular DNA G-quadruplexes found in eukaryotic promoter regions. Biochimie 90, 1149-1171
    • (2008) Biochimie , vol.90 , pp. 1149-1171
    • Qin, Y.1    Hurley, L.H.2
  • 12
    • 65649089445 scopus 로고    scopus 로고
    • The importance of negative superhelicity in inducing the formation of G-quadruplex and i-motif structures in the c-Myc promoter: Implications for drug targeting and control of gene expression
    • Sun, D. and Hurley, L.H. (2009) The importance of negative superhelicity in inducing the formation of G-quadruplex and i-motif structures in the c-Myc promoter: implications for drug targeting and control of gene expression. J. Med. Chem. 52, 2863-2874
    • (2009) J. Med. Chem. , vol.52 , pp. 2863-2874
    • Sun, D.1    Hurley, L.H.2
  • 13
    • 43949091791 scopus 로고    scopus 로고
    • Structures, kinetics, thermodynamics, and biological functions of RNA hairpins
    • Bevilacqua, P.C. and Blose, J.M. (2008) Structures, kinetics, thermodynamics, and biological functions of RNA hairpins. Annu. Rev. Phys. Chem. 59, 79-103
    • (2008) Annu. Rev. Phys. Chem. , vol.59 , pp. 79-103
    • Bevilacqua, P.C.1    Blose, J.M.2
  • 15
    • 58749105663 scopus 로고    scopus 로고
    • RNA folding: Thermodynamic and molecular descriptions of the roles of ions
    • Draper, D.E. (2008) RNA folding: thermodynamic and molecular descriptions of the roles of ions. Biophys. J. 95, 5489-5495
    • (2008) Biophys. J. , vol.95 , pp. 5489-5495
    • Draper, D.E.1
  • 16
    • 7544242666 scopus 로고    scopus 로고
    • The dynamic response of upstream DNA to transcription-generated torsional stress
    • Kouzine, F., Liu, J., Sanford, S., Chung, H.J. and Levens, D. (2004) The dynamic response of upstream DNA to transcription-generated torsional stress. Nat. Struct. Mol. Biol. 11, 1092-1100
    • (2004) Nat. Struct. Mol. Biol. , vol.11 , pp. 1092-1100
    • Kouzine, F.1    Liu, J.2    Sanford, S.3    Chung, H.J.4    Levens, D.5
  • 17
    • 0023433855 scopus 로고
    • Supercoiling of the DNA template during transcription
    • Liu, L.F. and Wang, J.C. (1987) Supercoiling of the DNA template during transcription. Proc. Natl. Acad. Sci. U.S.A. 84, 7024-7027
    • (1987) Proc. Natl. Acad. Sci. U.S.A. , vol.84 , pp. 7024-7027
    • Liu, L.F.1    Wang, J.C.2
  • 19
    • 0032582494 scopus 로고    scopus 로고
    • Force and velocity measured for single molecules of RNA polymerase
    • DOI 10.1126/science.282.5390.902
    • Wang, M.D., Schnitzer, M.J., Yin, H., Landick, R., Gelles, J. and Block, S.M. (1998) Force and velocity measured for single molecules of RNA polymerase. Science 282, 902-907 (Pubitemid 28507515)
    • (1998) Science , vol.282 , Issue.5390 , pp. 902-907
    • Wang, M.D.1    Schnitzer, M.J.2    Yin, H.3    Landick, R.4    Gelles, J.5    Block, S.M.6
  • 20
    • 0028371248 scopus 로고
    • Protein tracking-induced supercoiling of DNA: A tool to regulate DNA transactions in vivo?
    • Dröge, P. (1994) Protein tracking-induced supercoiling of DNA: a tool to regulate DNA transactions in vivo? BioEssays 16, 91-99
    • (1994) BioEssays , vol.16 , pp. 91-99
    • Dröge, P.1
  • 21
    • 15844383117 scopus 로고    scopus 로고
    • Friction and torque govern the relaxation of DNA supercoils by eukaryotic topoisomerase IB
    • DOI 10.1038/nature03395
    • Koster, D.A., Croquette, V., Dekker, C., Shuman, S. and Dekker, N.H. (2005) Friction and torque govern the relaxation of DNA supercoils by eukaryotic topoisomerase IB. Nature 434, 671-674 (Pubitemid 40488562)
    • (2005) Nature , vol.434 , Issue.7033 , pp. 671-674
    • Koster, D.A.1    Croquette, V.2    Dekker, C.3    Shuman, S.4    Dekker, N.H.5
  • 22
    • 65249109998 scopus 로고    scopus 로고
    • Transcriptional processing of G4 DNA
    • Tornaletti, S. (2009) Transcriptional processing of G4 DNA. Mol. Carcinog. 48, 326-335
    • (2009) Mol. Carcinog. , vol.48 , pp. 326-335
    • Tornaletti, S.1
  • 23
    • 0030028981 scopus 로고    scopus 로고
    • Differential control of transcription-induced and overall DNA supercoiling by eukaryotic topoisomerases in vitro
    • Wang, Z. and Dröge, P. (1996) Differential control of transcription-induced and overall DNA supercoiling by eukaryotic topoisomerases in vitro. EMBO J. 15, 581-589 (Pubitemid 26044571)
    • (1996) EMBO Journal , vol.15 , Issue.3 , pp. 581-589
    • Wang, Z.1    Droge, P.2
  • 24
    • 70549099970 scopus 로고    scopus 로고
    • The role of supercoiling in transcriptional control of MYC and its importance in molecular therapeutics
    • Brooks, T.A. and Hurley, L.H. (2009) The role of supercoiling in transcriptional control of MYC and its importance in molecular therapeutics. Nat. Rev. Cancer 9, 849-861
    • (2009) Nat. Rev. Cancer , vol.9 , pp. 849-861
    • Brooks, T.A.1    Hurley, L.H.2
  • 25
    • 77955809107 scopus 로고    scopus 로고
    • Making sense of G-quadruplex and i-motif functions in oncogene promoters
    • Brooks, T.A., Kendrick, S. and Hurley, L. (2010) Making sense of G-quadruplex and i-motif functions in oncogene promoters. FEBS J. 277, 3459-3469
    • (2010) FEBS J. , vol.277 , pp. 3459-3469
    • Brooks, T.A.1    Kendrick, S.2    Hurley, L.3
  • 26
    • 0019087696 scopus 로고
    • The inverted repeat as a recognizable structural feature in supercoiled DNA molecules
    • Lilley, D.M. (1980) The inverted repeat as a recognizable structural feature in supercoiled DNA molecules. Proc. Natl. Acad. Sci. U.S.A. 77, 6468-6472
    • (1980) Proc. Natl. Acad. Sci. U.S.A. , vol.77 , pp. 6468-6472
    • Lilley, D.M.1
  • 27
    • 41849123908 scopus 로고    scopus 로고
    • A novel G-quadruplex-forming GGA repeat region in the c-myb promoter is a critical regulator of promoter activity
    • DOI 10.1093/nar/gkm1069
    • Palumbo, S.L., Memmott, R.M., Uribe, D.J., Krotova-Khan, Y., Hurley, L.H. and Ebbinghaus, S.W. (2008) A novel G-quadruplex-forming GGA repeat region in the c-myb promoter is a critical regulator of promoter activity. Nucleic Acids Res. 36, 1755-1769 (Pubitemid 351494223)
    • (2008) Nucleic Acids Research , vol.36 , Issue.6 , pp. 1755-1769
    • Palumbo, S.L.1    Memmott, R.M.2    Uribe, D.J.3    Krotova-Khan, Y.4    Hurley, L.H.5    Ebbinghaus, S.W.6
  • 28
    • 68249156463 scopus 로고    scopus 로고
    • Formation of a unique end-to-end stacked pair of G-quadruplexes in the hTERT core promoter with implications for inhibition of telomerase by G-quadruplex-interactive ligands
    • Palumbo, S.L., Ebbinghaus, S.W. and Hurley, L.H. (2009) Formation of a unique end-to-end stacked pair of G-quadruplexes in the hTERT core promoter with implications for inhibition of telomerase by G-quadruplex-interactive ligands. J. Am. Chem. Soc. 131, 10878-10891
    • (2009) J. Am. Chem. Soc. , vol.131 , pp. 10878-10891
    • Palumbo, S.L.1    Ebbinghaus, S.W.2    Hurley, L.H.3
  • 29
    • 34247160470 scopus 로고    scopus 로고
    • Structure of an unprecedented G-quadruplex scaffold in the human c-kit promoter
    • Phan, A.T., Kuryavyi, V., Burge, S., Neidle, S. and Patel, D.J. (2007) Structure of an unprecedented G-quadruplex scaffold in the human c-kit promoter. J. Am. Chem. Soc. 129, 4386-4392
    • (2007) J. Am. Chem. Soc. , vol.129 , pp. 4386-4392
    • Phan, A.T.1    Kuryavyi, V.2    Burge, S.3    Neidle, S.4    Patel, D.J.5
  • 30
    • 38849085810 scopus 로고    scopus 로고
    • A sequence-independent study of the influence of short loop lengths on the stability and topology of intramolecular DNA G-quadraplexes
    • DOI 10.1021/bi701873c
    • Bugaut, A. and Balasubramanian, S. (2008) A sequence-independent study of the influence of short loop lengths on the stability and topology of intramolecular DNA G-quadruplexes. Biochemistry 47, 689-697 (Pubitemid 351195440)
    • (2008) Biochemistry , vol.47 , Issue.2 , pp. 689-697
    • Bugaut, A.1    Balasubramanian, S.2
  • 35
    • 1242274330 scopus 로고    scopus 로고
    • A guide to ions and RNA structure
    • Draper, D.E. (2004) A guide to ions and RNA structure. RNA 10, 335-343
    • (2004) RNA , vol.10 , pp. 335-343
    • Draper, D.E.1
  • 37
    • 4344569647 scopus 로고    scopus 로고
    • The contribution of metal ions to the structural stability of the large ribosomal subunit
    • DOI 10.1261/rna.7390804
    • Klein, D.J., Moore, P.B. and Steitz, T.A. (2004) The contribution of metal ions to the structural stability of the large ribosomal subunit. RNA 10, 1366-1379 (Pubitemid 39122107)
    • (2004) RNA , vol.10 , Issue.9 , pp. 1366-1379
    • Klein, D.J.1    Moore, P.B.2    Steitz, T.A.3
  • 38
    • 0024787884 scopus 로고
    • Monovalent cation-induced structure of telomeric DNA: The G-quartet model
    • DOI 10.1016/0092-8674(89)90610-7
    • Williamson, J.R., Raghuraman, M.K. and Cech, T.R. (1989) Monovalent cation-induced structure of telomeric DNA: the G-quartet model. Cell 59, 871-880 (Pubitemid 20022377)
    • (1989) Cell , vol.59 , Issue.5 , pp. 871-880
    • Williamson, J.R.1    Raghuraman, M.K.2    Cech, T.R.3
  • 40
    • 41349118107 scopus 로고    scopus 로고
    • Complex riboswitches
    • Breaker, R.R. (2008) Complex riboswitches. Science 319, 1795-1797
    • (2008) Science , vol.319 , pp. 1795-1797
    • Breaker, R.R.1
  • 41
    • 49349100603 scopus 로고    scopus 로고
    • RNA pseudoknots and the regulation of protein synthesis
    • Brierley, I., Gilbert, R.J. and Pennell, S. (2008) RNA pseudoknots and the regulation of protein synthesis. Biochem. Soc. Trans. 36, 684-689
    • (2008) Biochem. Soc. Trans. , vol.36 , pp. 684-689
    • Brierley, I.1    Gilbert, R.J.2    Pennell, S.3
  • 42
    • 0033169013 scopus 로고    scopus 로고
    • Assaying RNA chaperone activity in vivo using a novel RNA folding trap
    • DOI 10.1093/emboj/18.13.3776
    • Clodi, E., Semrad, K. and Schroeder, R. (1999) Assaying RNA chaperone activity in vivo using a novel RNA folding trap. EMBO J. 18, 3776-3782 (Pubitemid 29308856)
    • (1999) EMBO Journal , vol.18 , Issue.13 , pp. 3776-3782
    • Clodi, E.1    Semrad, K.2    Schroeder, R.3
  • 43
    • 34347263078 scopus 로고    scopus 로고
    • Assaying RNA chaperone activity in vivo in bacteria using a ribozyme folding trap
    • Prenninger, S., Schroeder, R. and Semrad, K. (2006) Assaying RNA chaperone activity in vivo in bacteria using a ribozyme folding trap. Nat. Protoc. 1, 1273-1277
    • (2006) Nat. Protoc. , vol.1 , pp. 1273-1277
    • Prenninger, S.1    Schroeder, R.2    Semrad, K.3
  • 44
    • 0017295709 scopus 로고
    • Conformational changes of transfer RNA: The role of magnesium(II)
    • Stein, A. and Crothers, D.M. (1976) Conformational changes of transfer RNA: the role of magnesium(II). Biochemistry 15, 160-168
    • (1976) Biochemistry , vol.15 , pp. 160-168
    • Stein, A.1    Crothers, D.M.2
  • 45
    • 66549094626 scopus 로고    scopus 로고
    • The long and the short of riboswitches
    • Serganov, A. (2009) The long and the short of riboswitches. Curr. Opin. Struct. Biol. 19, 251-259
    • (2009) Curr. Opin. Struct. Biol. , vol.19 , pp. 251-259
    • Serganov, A.1
  • 46
    • 33846928449 scopus 로고    scopus 로고
    • G-quadruplexes in promoters throughout the human genome
    • DOI 10.1093/nar/gkl1057
    • Huppert, J.L. and Balasubramanian, S. (2007) G-quadruplexes in promoters throughout the human genome. Nucleic Acids Res. 35, 406-413 (Pubitemid 46232058)
    • (2007) Nucleic Acids Research , vol.35 , Issue.2 , pp. 406-413
    • Huppert, J.L.1    Balasubramanian, S.2
  • 47
    • 52449093394 scopus 로고    scopus 로고
    • Genome-wide computational and expression analyses reveal G-quadruplex DNA motifs as conserved cis-regulatory elements in human and related species
    • Verma, A., Halder, K., Halder, R., Yadav, V.K., Rawal, P., Thakur, R.K., Mohd, F., Sharma, A. and Chowdhury, S. (2008) Genome-wide computational and expression analyses reveal G-quadruplex DNA motifs as conserved cis-regulatory elements in human and related species. J. Med. Chem. 51, 5641-5649
    • (2008) J. Med. Chem. , vol.51 , pp. 5641-5649
    • Verma, A.1    Halder, K.2    Halder, R.3    Yadav, V.K.4    Rawal, P.5    Thakur, R.K.6    Mohd, F.7    Sharma, A.8    Chowdhury, S.9
  • 48
    • 77952328975 scopus 로고    scopus 로고
    • Molecular cloning of the human platelet-derived growth factor receptor β (PDGFR-β) promoter and drug targeting of the G-quadruplex-forming region to repress PDGFR-β expression
    • Qin, Y., Fortin, J.S., Tye, D., Gleason-Guzman, M., Brooks, T.A. and Hurley, L.H. (2010) Molecular cloning of the human platelet-derived growth factor receptor β (PDGFR-β) promoter and drug targeting of the G-quadruplex-forming region to repress PDGFR-β expression. Biochemistry 49, 4208-4219
    • (2010) Biochemistry , vol.49 , pp. 4208-4219
    • Qin, Y.1    Fortin, J.S.2    Tye, D.3    Gleason-Guzman, M.4    Brooks, T.A.5    Hurley, L.H.6
  • 49
    • 77956144499 scopus 로고    scopus 로고
    • Asserting the role of G-quadruplex/i-motif secondary structures as cis-acting regulatory elements
    • Kendrick, S. and Hurley, L.H. (2010) Asserting the role of G-quadruplex/i-motif secondary structures as cis-acting regulatory elements. Pure Appl. Chem. 82, 1609-1621
    • (2010) Pure Appl. Chem. , vol.82 , pp. 1609-1621
    • Kendrick, S.1    Hurley, L.H.2
  • 50
    • 0034614637 scopus 로고    scopus 로고
    • The hallmarks of cancer
    • Hanahan, D. and Weinberg, R.A. (2000) The hallmarks of cancer. Cell 100, 57-70 (Pubitemid 30046295)
    • (2000) Cell , vol.100 , Issue.1 , pp. 57-70
    • Hanahan, D.1    Weinberg, R.A.2


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