메뉴 건너뛰기




Volumn 324, Issue 4, 2002, Pages 667-676

Structural effects of cytosine methylation on DNA sugar pucker studied by FTIR

Author keywords

DNA sugar pucker; FTIR BI BII conformational substates; Methylated DNA

Indexed keywords

5 METHYLCYTOSINE; CYTOSINE; DNA B; DOUBLE STRANDED DNA; GUANOSINE; SUGAR;

EID: 0036922909     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0022-2836(02)01104-X     Document Type: Article
Times cited : (67)

References (51)
  • 1
    • 0020359857 scopus 로고
    • Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG
    • Fratini, A. V., Kopka, M. L., Drew, H. R. & Dickerson, R. E. (1982). Reversible bending and helix geometry in a B-DNA dodecamer: CGCGAATTBrCGCG. J. Biol. Chem. 257, 14686-14707.
    • (1982) J. Biol. Chem. , vol.257 , pp. 14686-14707
    • Fratini, A.V.1    Kopka, M.L.2    Drew, H.R.3    Dickerson, R.E.4
  • 2
    • 0025816853 scopus 로고
    • The structure of B-helical C-G-A-T-C-G-A-T-C-G and comparison with C-C-A-A-C-G-T-T-G-G. The effect of base pair reversals
    • Grzeskowiak, K., Yanagi, K., Prive, G. G. & Dickerson, R. E. (1991). The structure of B-helical C-G-A-T-C-G-A-T-C-G and comparison with C-C-A-A-C-G-T-T-G-G. The effect of base pair reversals. J. Biol. Chem. 266, 8861-8883.
    • (1991) J. Biol. Chem. , vol.266 , pp. 8861-8883
    • Grzeskowiak, K.1    Yanagi, K.2    Prive, G.G.3    Dickerson, R.E.4
  • 3
    • 0031195002 scopus 로고    scopus 로고
    • Conformations of the sugar-phosphate backbone in helical DNA crystal structures
    • Schneider, B., Neidle, S. & Berman, H. M. (1997). Conformations of the sugar-phosphate backbone in helical DNA crystal structures. Biopolymers, 42, 113-124.
    • (1997) Biopolymers , vol.42 , pp. 113-124
    • Schneider, B.1    Neidle, S.2    Berman, H.M.3
  • 7
    • 0026653420 scopus 로고
    • The essentials of DNA methylation
    • Bird, A. (1992). The essentials of DNA methylation. Cell, 70, 5-8.
    • (1992) Cell , vol.70 , pp. 5-8
    • Bird, A.1
  • 8
    • 0024281345 scopus 로고
    • DNA methylation and gene activity
    • Cedar, H. (1988). DNA methylation and gene activity. Cell, 53, 3-4.
    • (1988) Cell , vol.53 , pp. 3-4
    • Cedar, H.1
  • 9
    • 0022545498 scopus 로고
    • DNA methylation affects the formation of active chromatin
    • Keshet, I., Lieman-Hurwitz, J. & Cedar, H. (1986). DNA methylation affects the formation of active chromatin. Cell, 44, 535-543.
    • (1986) Cell , vol.44 , pp. 535-543
    • Keshet, I.1    Lieman-Hurwitz, J.2    Cedar, H.3
  • 10
    • 0028286005 scopus 로고
    • DNA methylation and genomic imprinting
    • Razin, A. & Cedar, H. (1994). DNA methylation and genomic imprinting. Cell, 77, 473-476.
    • (1994) Cell , vol.77 , pp. 473-476
    • Razin, A.1    Cedar, H.2
  • 11
    • 0027535235 scopus 로고
    • Effects of DNA methylation on DNA-binding proteins and gene expression
    • Tate, P. H. & Bird, A. P. (1993). Effects of DNA methylation on DNA-binding proteins and gene expression. Curr. Opin. Genet. Dev. 3, 226-231.
    • (1993) Curr. Opin. Genet. Dev. , vol.3 , pp. 226-231
    • Tate, P.H.1    Bird, A.P.2
  • 12
    • 0017871218 scopus 로고
    • Use of restriction enzymes to study eukaryotic DNA methylation II. The symmetry of methylated sites supports semi-conservative copying of the methylation pattern
    • Bird, A. P. (1978). Use of restriction enzymes to study eukaryotic DNA methylation. II. The symmetry of methylated sites supports semi-conservative copying of the methylation pattern. J. Mol. Biol. 118, 49-60.
    • (1978) J. Mol. Biol. , vol.118 , pp. 49-60
    • Bird, A.P.1
  • 13
    • 0019322245 scopus 로고
    • DNA methylation and the frequency of CpG in animal DNA
    • Bird, A. P. (1980). DNA methylation and the frequency of CpG in animal DNA. Nucl. Acids Res. 8, 1499-1504.
    • (1980) Nucl. Acids Res. , vol.8 , pp. 1499-1504
    • Bird, A.P.1
  • 14
    • 0022540321 scopus 로고
    • CpG-rich islands and the function of DNA methylation
    • Bird, A. P. (1986). CpG-rich islands and the function of DNA methylation. Nature, 321, 209-213.
    • (1986) Nature , vol.321 , pp. 209-213
    • Bird, A.P.1
  • 15
    • 0034305821 scopus 로고    scopus 로고
    • DNA methylation in health and disease
    • Robertson, K. D. & Wolffe, A. P. (2000). DNA methylation in health and disease. Nature Rev. Genet. 1, 11-19.
    • (2000) Nature Rev. Genet. , vol.1 , pp. 11-19
    • Robertson, K.D.1    Wolffe, A.P.2
  • 16
    • 0033119780 scopus 로고    scopus 로고
    • DNA methylation and chromatin modification
    • Ng, H. H. & Bird, A. (1999). DNA methylation and chromatin modification. Curr. Opin. Genet. Dev. 9, 158-163.
    • (1999) Curr. Opin. Genet. Dev. , vol.9 , pp. 158-163
    • Ng, H.H.1    Bird, A.2
  • 17
    • 0000716961 scopus 로고
    • The crystal structure of d(GGm5CCGGCC): The effect of methylation on A-DNA structure and stability
    • Frederick, C. A., Saal, D., van der Marel, G. A., van Boom, J. H., Wang, A. H. & Rich, A. (1987). The crystal structure of d(GGm5CCGGCC): The effect of methylation on A-DNA structure and stability. Biopolymers, 26, S145-S160.
    • (1987) Biopolymers , vol.26
    • Frederick, C.A.1    Saal, D.2    Van der Marel, G.A.3    Van Boom, J.H.4    Wang, A.H.5    Rich, A.6
  • 18
    • 0029076479 scopus 로고
    • Alternating and non-alternating dG-dC hexa-nucleotides crystallize as canonical A-DNA
    • Mooers, B. H., Schroth, G. P., Baxter, W. W. & Ho, P. S. (1995). Alternating and non-alternating dG-dC hexa-nucleotides crystallize as canonical A-DNA. J. Mol. Biol. 249, 772-784.
    • (1995) J. Mol. Biol. , vol.249 , pp. 772-784
    • Mooers, B.H.1    Schroth, G.P.2    Baxter, W.W.3    Ho, P.S.4
  • 19
    • 0019544304 scopus 로고
    • Effects of methylation on a synthetic polynucleotide: The B-Z transition in poly(dG-m5dC)·poly(dG-m5dC)
    • Behe, M. & Felsenfeld, G. (1981). Effects of methylation on a synthetic polynucleotide: the B-Z transition in poly(dG-m5dC)·poly(dG-m5dC). Proc. Natl. Acad. Sci. USA, 78, 1619-1623.
    • (1981) Proc. Natl. Acad. Sci. USA , vol.78 , pp. 1619-1623
    • Behe, M.1    Felsenfeld, G.2
  • 22
    • 0035912812 scopus 로고    scopus 로고
    • A crystallographic map of the transition from B-DNA to A-DNA
    • Vargason, J. M., Henderson, K. & Ho, P. S. (2001). A crystallographic map of the transition from B-DNA to A-DNA. Proc. Natl. Acad. Sci. USA, 98, 7265-7270.
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 7265-7270
    • Vargason, J.M.1    Henderson, K.2    Ho, P.S.3
  • 23
    • 0033818701 scopus 로고    scopus 로고
    • The extended and eccentric E-DNA structure induced by cytosine methylation or bromination
    • Vargason, J. M., Eichman, B. F. & Ho, P. S. (2000). The extended and eccentric E-DNA structure induced by cytosine methylation or bromination. Nature Struct. Biol. 7, 758-761.
    • (2000) Nature Struct. Biol. , vol.7 , pp. 758-761
    • Vargason, J.M.1    Eichman, B.F.2    Ho, P.S.3
  • 24
    • 0026738923 scopus 로고
    • C-C-A-G-G-C-m5C-T-G-G. Helical fine structure, hydration, and comparison with C-C-A-G-G-C-C-T-G-G
    • Heinemann, U. & Hahn, M. (1992). C-C-A-G-G-C-m5C-T-G-G. Helical fine structure, hydration, and comparison with C-C-A-G-G-C-C-T-G-G. J. Biol. Chem. 267, 7332-7341.
    • (1992) J. Biol. Chem. , vol.267 , pp. 7332-7341
    • Heinemann, U.1    Hahn, M.2
  • 28
    • 0035369057 scopus 로고    scopus 로고
    • Impact of CpG methylation on structure, dynamics and solvation of cAMP DNA responsive element
    • Derreumaux, S., Chaoui, M., Tevanian, G. & Fermandjian, S. (2001). Impact of CpG methylation on structure, dynamics and solvation of cAMP DNA responsive element. Nucl. Acids Res. 29, 2314-2326.
    • (2001) Nucl. Acids Res. , vol.29 , pp. 2314-2326
    • Derreumaux, S.1    Chaoui, M.2    Tevanian, G.3    Fermandjian, S.4
  • 29
    • 0035899997 scopus 로고    scopus 로고
    • Dynamic impact of methylation at the M. Hhai target site: A solid-state deuterium NMR study
    • Meints, G. A. & Drobny, G. P. (2001). Dynamic impact of methylation at the M. Hhai target site: A solid-state deuterium NMR study. Biochemistry, 40, 12436-12443.
    • (2001) Biochemistry , vol.40 , pp. 12436-12443
    • Meints, G.A.1    Drobny, G.P.2
  • 30
    • 0036306349 scopus 로고    scopus 로고
    • Bending and flexibility of methylated and unmethylated Eco RI DNA
    • Nathan, D. & Crothers, D. M. (2002). Bending and flexibility of methylated and unmethylated Eco RI DNA. J. Mol. Biol. 316, 7-17.
    • (2002) J. Mol. Biol. , vol.316 , pp. 7-17
    • Nathan, D.1    Crothers, D.M.2
  • 31
    • 0032029586 scopus 로고    scopus 로고
    • Flexibility of the B-DNA backbone: Effects of local and neighbouring sequences on pyrimidine-purine steps
    • Bertrand, H., Ha-Duong, T., Fermandjian, S. & Hartmann, B. (1998). Flexibility of the B-DNA backbone: Effects of local and neighbouring sequences on pyrimidine-purine steps. Nucl. Acids Res. 26, 1261-1267.
    • (1998) Nucl. Acids Res. , vol.26 , pp. 1261-1267
    • Bertrand, H.1    Ha-Duong, T.2    Fermandjian, S.3    Hartmann, B.4
  • 32
    • 0034614487 scopus 로고    scopus 로고
    • Sequence-dependent DNA structure: Tetranucleotide conformational maps
    • Packer, M. J., Dauncey, M. P. & Hunter, C. A. (2000). Sequence-dependent DNA structure: Tetranucleotide conformational maps. J. Mol. Biol. 295, 85-103.
    • (2000) J. Mol. Biol. , vol.295 , pp. 85-103
    • Packer, M.J.1    Dauncey, M.P.2    Hunter, C.A.3
  • 33
    • 0035976750 scopus 로고    scopus 로고
    • An FTIR and CD study of the structural effects of G-tract length and sequence context on DNA conformation in solution
    • Lindqvist, M. & Gräslund, A. (2001). An FTIR and CD study of the structural effects of G-tract length and sequence context on DNA conformation in solution. J. Mol. Biol. 314, 423-432.
    • (2001) J. Mol. Biol. , vol.314 , pp. 423-432
    • Lindqvist, M.1    Gräslund, A.2
  • 34
    • 0024580767 scopus 로고
    • Interpretation of DNA vibration modes: III - The behaviour of the sugar pucker vibration modes as a function of its pseudorotation parameters
    • Dohy, D., Ghomi, M. & Taillandier, E. (1989). Interpretation of DNA vibration modes: III - The behaviour of the sugar pucker vibration modes as a function of its pseudorotation parameters. J. Biomol. Struct. Dyn. 6, 741-754.
    • (1989) J. Biomol. Struct. Dyn. , vol.6 , pp. 741-754
    • Dohy, D.1    Ghomi, M.2    Taillandier, E.3
  • 35
    • 0343312127 scopus 로고    scopus 로고
    • B-DNA's conformational substates revealed by Fourier transform infrared difference spectroscopy
    • Rüdisser, S., Hallbrucker, A. & Mayer, E. (1997). B-DNA's conformational substates revealed by Fourier transform infrared difference spectroscopy. J. Am. Chem. Soc. 119, 12251-12256.
    • (1997) J. Am. Chem. Soc. , vol.119 , pp. 12251-12256
    • Rüdisser, S.1    Hallbrucker, A.2    Mayer, E.3
  • 36
    • 0014926004 scopus 로고
    • Application of infrared spectroscopy to structure studies of nucleic acids
    • Brame, E. G. J., ed. Dekker, New York
    • Tsuboi, M. (1969). Application of infrared spectroscopy to structure studies of nucleic acids. In Applied Spectroscopy Reviews (Brame, E. G. J., ed.), pp. 45-90, Dekker, New York.
    • (1969) Applied Spectroscopy Reviews , pp. 45-90
    • Tsuboi, M.1
  • 37
  • 38
    • 0024516524 scopus 로고
    • Interpretation of DNA vibration modes: IV - A single-helical approach to assign the phosphate-backbone contribution to the vibrational spectra in A and B conformations
    • Letellier, R., Ghomi, M. & Taillandier, E. (1989). Interpretation of DNA vibration modes: IV - A single-helical approach to assign the phosphate-backbone contribution to the vibrational spectra in A and B conformations. J. Biomol. Struct. Dyn. 6, 755-768.
    • (1989) J. Biomol. Struct. Dyn. , vol.6 , pp. 755-768
    • Letellier, R.1    Ghomi, M.2    Taillandier, E.3
  • 41
    • 0001597011 scopus 로고
    • Characterization of DNA structures by infrared spectroscopy: Double helical forms of poly(dG-dC) * poly(dG-dC), poly(dD8G-dC) * poly(dD8G-dC), and poly(dG-dm5C) * poly(dG-dm5C)
    • Taboury, J. A., Liquier, J. & Taillandier, E. (1985). Characterization of DNA structures by infrared spectroscopy: Double helical forms of poly(dG-dC) * poly(dG-dC), poly(dD8G-dC) * poly(dD8G-dC), and poly(dG-dm5C) * poly(dG-dm5C). Can. J. Chem. 63, 1904-1909.
    • (1985) Can. J. Chem. , vol.63 , pp. 1904-1909
    • Taboury, J.A.1    Liquier, J.2    Taillandier, E.3
  • 42
    • 0002276751 scopus 로고    scopus 로고
    • Infrared spectroscopy of nucleic acids
    • Mantsch, H. H. & Chapman, D., eds, Wiley-Liss, New York
    • Liquier, J. & Taillandier, E. (1996). Infrared spectroscopy of nucleic acids. In Infrared Spectroscopy of Biomolecules (Mantsch, H. H. & Chapman, D., eds), pp. 131-158, Wiley-Liss, New York.
    • (1996) Infrared Spectroscopy of Biomolecules , pp. 131-158
    • Liquier, J.1    Taillandier, E.2
  • 44
    • 0003039165 scopus 로고
    • Infrared and Raman spectra of nucleic acids - Vibrations in the base-residues
    • Duchesne, J., ed., Academic Press, London
    • Tsuboi, M., Takahasi, S. & Harada, I. (1973). Infrared and Raman spectra of nucleic acids - Vibrations in the base-residues. In Physico-chemical Properties of Nucleic Acids (Duchesne, J., ed.), pp. 91-145, Academic Press, London.
    • (1973) Physico-chemical Properties of Nucleic Acids , pp. 91-145
    • Tsuboi, M.1    Takahasi, S.2    Harada, I.3
  • 45
    • 0029970811 scopus 로고    scopus 로고
    • Vibrational analysis of nucleic acids. V. Force field and conformation-dependent modes of the phosphodiester backbone modeled by diethyl phosphate
    • Guan, Y. & Thomas, G. J., Jr (1996). Vibrational analysis of nucleic acids. V. Force field and conformation-dependent modes of the phosphodiester backbone modeled by diethyl phosphate. Biophys. J. 71, 2802-2814.
    • (1996) Biophys. J. , vol.71 , pp. 2802-2814
    • Guan, Y.1    Thomas G.J., Jr.2
  • 47
    • 0032540859 scopus 로고    scopus 로고
    • Sequence-dependent DNA structure: The role of the sugar-phosphate backbone
    • Packer, M. J. & Hunter, C. A. (1998). Sequence-dependent DNA structure: The role of the sugar-phosphate backbone. J. Mol. Biol. 280, 407-420.
    • (1998) J. Mol. Biol. , vol.280 , pp. 407-420
    • Packer, M.J.1    Hunter, C.A.2
  • 48
    • 0024804759 scopus 로고
    • Absorbance melting curves of RNA
    • Puglisi, J. D. & Tinoco, I., Jr (1989). Absorbance melting curves of RNA. Methods Enzymol. 180, 304-325.
    • (1989) Methods Enzymol. , vol.180 , pp. 304-325
    • Puglisi, J.D.1    Tinoco I., Jr.2
  • 49
    • 0023111789 scopus 로고
    • Interpretation of DNA vibration modes. II - The adenosine and thymidine residues involved in oligo-nucleotides and polynucleotides
    • Letellier, R., Ghomi, M. & Taillandier, E. (1987). Interpretation of DNA vibration modes. II - The adenosine and thymidine residues involved in oligo-nucleotides and polynucleotides. J. Biomol. Struct. Dyn. 4, 663-683.
    • (1987) J. Biomol. Struct. Dyn. , vol.4 , pp. 663-683
    • Letellier, R.1    Ghomi, M.2    Taillandier, E.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.