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Volumn 35, Issue 4, 2007, Pages 1169-1177

Raman and Raman optical activity (ROA) analysis of RNA structural motifs in Domain I of the EMCV IRES

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE; NUCLEIC ACID BASE; OLIGONUCLEOTIDE; PYRIMIDINE; RIBOSE; RNA;

EID: 34047159425     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkm012     Document Type: Article
Times cited : (64)

References (38)
  • 1
    • 0034118337 scopus 로고    scopus 로고
    • Solution structure and dynamics of biomolecules from Raman optical activity
    • Barron,L.D., Hecht,L., Blanch,E.W. and Bell,A.F. (2000) Solution structure and dynamics of biomolecules from Raman optical activity. Prog. Biophys. Mol. Biol., 73, 1-49.
    • (2000) Prog. Biophys. Mol. Biol. , vol.73 , pp. 1-49
    • Barron, L.D.1    Hecht, L.2    Blanch, E.W.3    Bell, A.F.4
  • 2
    • 18444405871 scopus 로고    scopus 로고
    • Raman, polarized Raman and ultraviolet resonance Raman spectroscopy of nucleic acids and their complexes
    • Benevides,J.M., Overman,S.A. and Thomas,G.J. (2005) Raman, polarized Raman and ultraviolet resonance Raman spectroscopy of nucleic acids and their complexes. J. Raman Spectrosc., 36, 279-299.
    • (2005) J. Raman Spectrosc. , vol.36 , pp. 279-299
    • Benevides, J.M.1    Overman, S.A.2    Thomas, G.J.3
  • 4
    • 0030628997 scopus 로고    scopus 로고
    • Infrared and Raman vibrational optical activity: Theoretical and experimental aspects
    • Nafie,L.A. (1997) Infrared and Raman vibrational optical activity: theoretical and experimental aspects. Annu. Rev. Phys. Chem., 48, 357-386.
    • (1997) Annu. Rev. Phys. Chem. , vol.48 , pp. 357-386
    • Nafie, L.A.1
  • 5
    • 0037329058 scopus 로고    scopus 로고
    • Vibrational Raman optical activity of proteins, nucleic acids, and viruses
    • Blanch,E.W., Hecht,L. and Barron,L.D. (2003) Vibrational Raman optical activity of proteins, nucleic acids, and viruses. Methods, 29, 196-209.
    • (2003) Methods , vol.29 , pp. 196-209
    • Blanch, E.W.1    Hecht, L.2    Barron, L.D.3
  • 7
    • 2342547777 scopus 로고    scopus 로고
    • Structural characterization of proteins and viruses using Raman optical activity
    • Blanch,E.W., McColl,I.H., Hecht,L., Nielsen,K. and Barron,L.D. (2004) Structural characterization of proteins and viruses using Raman optical activity. Vib. Spectrosc., 35, 87-92.
    • (2004) Vib. Spectrosc. , vol.35 , pp. 87-92
    • Blanch, E.W.1    McColl, I.H.2    Hecht, L.3    Nielsen, K.4    Barron, L.D.5
  • 8
    • 0032986173 scopus 로고    scopus 로고
    • Raman spectroscopy of protein and nucleic acid assemblies
    • Thomas,G.J. (1999) Raman spectroscopy of protein and nucleic acid assemblies. Annu. Rev. Biophys. Biomol. Struct., 28, 1-27.
    • (1999) Annu. Rev. Biophys. Biomol. Struct. , vol.28 , pp. 1-27
    • Thomas, G.J.1
  • 11
    • 0003130220 scopus 로고    scopus 로고
    • Aqueous phase structural features of GNRA tetraloops formed in short hairpins as evidenced by UV absorption and Raman spectroscopy
    • Leulliot,N., Baumruk,V., Gouyette,C., Huynh-Dinh,T., Turpin,P.Y. and Ghomi,M. (1999) Aqueous phase structural features of GNRA tetraloops formed in short hairpins as evidenced by UV absorption and Raman spectroscopy. Vib. Spectrosc., 19, 335-340.
    • (1999) Vib. Spectrosc. , vol.19 , pp. 335-340
    • Leulliot, N.1    Baumruk, V.2    Gouyette, C.3    Huynh-Dinh, T.4    Turpin, P.Y.5    Ghomi, M.6
  • 12
    • 33748628539 scopus 로고    scopus 로고
    • Vibrational Raman optical activity of pyrimidine nucleosides
    • Bell,A.F., Hecht,L. and Barron,L.D. (1997) Vibrational Raman optical activity of pyrimidine nucleosides. J. Chem. Soc. Faraday Trans., 93, 553-562.
    • (1997) J. Chem. Soc. Faraday Trans. , vol.93 , pp. 553-562
    • Bell, A.F.1    Hecht, L.2    Barron, L.D.3
  • 13
    • 0030745676 scopus 로고    scopus 로고
    • Vibrational Raman optical activity as a probe of polyribonucleotide solution stereo-chemistry
    • Bell,A.F., Hecht,L. and Barron,L.D. (1997) Vibrational Raman optical activity as a probe of polyribonucleotide solution stereo-chemistry. JACS, 119, 6006-6013.
    • (1997) JACS , vol.119 , pp. 6006-6013
    • Bell, A.F.1    Hecht, L.2    Barron, L.D.3
  • 14
    • 0031616721 scopus 로고    scopus 로고
    • Evidence for global mobility in the premelting of a polynucleotide from temperature-dependent Raman optical activity
    • Bell,A.F., Hecht,L. and Barron,L.D. (1998) Evidence for global mobility in the premelting of a polynucleotide from temperature-dependent Raman optical activity. Biospectroscopy, 4, 107-111.
    • (1998) Biospectroscopy , vol.4 , pp. 107-111
    • Bell, A.F.1    Hecht, L.2    Barron, L.D.3
  • 15
    • 0000936719 scopus 로고    scopus 로고
    • Evidence for a new transition in polyribonucleotides from Raman optical activity
    • Bell,A.F., Hecht,L. and Barron,L.D. (1999) Evidence for a new transition in polyribonucleotides from Raman optical activity. J. Raman Spectrosc., 30, 651-656.
    • (1999) J. Raman Spectrosc. , vol.30 , pp. 651-656
    • Bell, A.F.1    Hecht, L.2    Barron, L.D.3
  • 17
    • 0032541157 scopus 로고    scopus 로고
    • Translation eukaryotic initiation factor 4G recognizes a specific structural element within the internal ribosome entry site of encephalomyocarditis virus RNA
    • Kolupaeva,V.G., Pestova,T.V., Hellen,C.U.T. and Shatsky,I.N. (1998) Translation eukaryotic initiation factor 4G recognizes a specific structural element within the internal ribosome entry site of encephalomyocarditis virus RNA. J. Biol. Chem., 273, 18599-18604.
    • (1998) J. Biol. Chem. , vol.273 , pp. 18599-18604
    • Kolupaeva, V.G.1    Pestova, T.V.2    Hellen, C.U.T.3    Shatsky, I.N.4
  • 18
    • 0028829213 scopus 로고
    • Defective point mutants of the encephalomyocarditis virus internal ribosome entry site can be complemented in trans
    • Vandervelden,A., Kaminski,A., Jackson,R.J. and Belsham,G.J. (1995) Defective point mutants of the encephalomyocarditis virus internal ribosome entry site can be complemented in trans. Virology, 214, 82-90.
    • (1995) Virology , vol.214 , pp. 82-90
    • Vandervelden, A.1    Kaminski, A.2    Jackson, R.J.3    Belsham, G.J.4
  • 19
    • 0025253838 scopus 로고
    • The novel mechanism of initiation of picornavirus RNA translation
    • Jackson,R.J., Howell,M.T. and Kaminski,A. (1990) The novel mechanism of initiation of picornavirus RNA translation. Trends Biochem. Sci., 15, 477-483.
    • (1990) Trends Biochem. Sci. , vol.15 , pp. 477-483
    • Jackson, R.J.1    Howell, M.T.2    Kaminski, A.3
  • 20
    • 0029437960 scopus 로고
    • Internal initiation of translation in eukaryotes: The picornavirus paradigm and beyond
    • Jackson,R.J. and Kaminski,A. (1995) Internal initiation of translation in eukaryotes: The picornavirus paradigm and beyond. RNA, 1, 985-1000.
    • (1995) RNA , vol.1 , pp. 985-1000
    • Jackson, R.J.1    Kaminski, A.2
  • 21
    • 0031555658 scopus 로고    scopus 로고
    • Complementation of defective picornavirus internal ribosome entry site (IRES) elements by the coexpression of fragments of the IRES
    • Roberts,L.O. and Belsham,G.J. (1997) Complementation of defective picornavirus internal ribosome entry site (IRES) elements by the coexpression of fragments of the IRES. Virology, 227, 53-62.
    • (1997) Virology , vol.227 , pp. 53-62
    • Roberts, L.O.1    Belsham, G.J.2
  • 22
    • 0032863246 scopus 로고    scopus 로고
    • A selection system for functional internal ribosome entry site (IRES) elements: Analysis of the requirement for a conserved GNRA tetraloop in the encephalomyocarditis virus IRES
    • Robertson,M.E.M., Seamons,R.A. and Belsham,G.J. (1999) A selection system for functional internal ribosome entry site (IRES) elements: analysis of the requirement for a conserved GNRA tetraloop in the encephalomyocarditis virus IRES. RNA, 5, 1167-1179.
    • (1999) RNA , vol.5 , pp. 1167-1179
    • Robertson, M.E.M.1    Seamons, R.A.2    Belsham, G.J.3
  • 23
    • 0242493466 scopus 로고    scopus 로고
    • Conserved nucleotides within the J domain of the encephalomyocarditis virus internal ribosome entry site are required for activity and for interaction with eIF4G
    • Clark,A.T., Robertson,M.E.M., Conn,G.L. and Belsham,G.J. (2003) Conserved nucleotides within the J domain of the encephalomyocarditis virus internal ribosome entry site are required for activity and for interaction with eIF4G. J. Virol., 77, 12441-12449.
    • (2003) J. Virol. , vol.77 , pp. 12441-12449
    • Clark, A.T.1    Robertson, M.E.M.2    Conn, G.L.3    Belsham, G.J.4
  • 24
    • 4444253828 scopus 로고    scopus 로고
    • 2+ binding properties of a conserved RNA motif of EMCV picornavirus IRES element
    • 2+ binding properties of a conserved RNA motif of EMCV picornavirus IRES element. Nucleic Acids Res., 32, 4715-4724.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 4715-4724
    • Phelan, M.1    Banks, R.J.2    Conn, G.3    Ramesh, V.4
  • 25
    • 0042161808 scopus 로고    scopus 로고
    • General plasmids for producing RNA in vitro transcripts with homogeneous ends
    • Walker,S.C., Avis,J.M. and Conn,G.L. (2003) General plasmids for producing RNA in vitro transcripts with homogeneous ends. NAR Methods, 31, e82.
    • (2003) NAR Methods , vol.31
    • Walker, S.C.1    Avis, J.M.2    Conn, G.L.3
  • 26
    • 0001350667 scopus 로고    scopus 로고
    • A novel high-throughput Raman spectrometer for polarization difference measurements
    • Hug,W. and Hangartner,G. (1999) A novel high-throughput Raman spectrometer for polarization difference measurements. J. Raman Spectrosc., 30, 841-852.
    • (1999) J. Raman Spectrosc. , vol.30 , pp. 841-852
    • Hug, W.1    Hangartner, G.2
  • 27
    • 0019840664 scopus 로고
    • Studies of virus structure by laser Raman spectroscopy. 9. Structural studies of Tobacco Mosaic Virus and its components by laser Raman spectroscopy
    • Fish,S.R., Hartman,K.A., Stubbs,G.J. and Thomas,G.J. (1981) Studies of virus structure by laser Raman spectroscopy. 9. Structural studies of Tobacco Mosaic Virus and its components by laser Raman spectroscopy. Biochemistry, 20, 7449-7457.
    • (1981) Biochemistry , vol.20 , pp. 7449-7457
    • Fish, S.R.1    Hartman, K.A.2    Stubbs, G.J.3    Thomas, G.J.4
  • 28
    • 0035477237 scopus 로고    scopus 로고
    • Comparison between CUUG and UUCG tetraloops: Thermodynamic stability and structural features analyzed by UV absorption and vibrational spectroscopy
    • Baumruk,V., Gouyette,C., Huynh-Dinh,T., Sun,J.S. and Ghomi,M. (2001) Comparison between CUUG and UUCG tetraloops: Thermodynamic stability and structural features analyzed by UV absorption and vibrational spectroscopy. Nucleic Acids Res., 29, 4089-4096.
    • (2001) Nucleic Acids Res. , vol.29 , pp. 4089-4096
    • Baumruk, V.1    Gouyette, C.2    Huynh-Dinh, T.3    Sun, J.S.4    Ghomi, M.5
  • 29
    • 0015326575 scopus 로고
    • Determination of backbone structure of nucleic acids and nucleic acid oligomers by laser Raman scattering
    • Erfurth,S.C., Kiser,E.J. and Peticolas,W.L. (1972) Determination of backbone structure of nucleic acids and nucleic acid oligomers by laser Raman scattering. PNAS, 69, 938-941.
    • (1972) PNAS , vol.69 , pp. 938-941
    • Erfurth, S.C.1    Kiser, E.J.2    Peticolas, W.L.3
  • 30
    • 0002591691 scopus 로고    scopus 로고
    • Vibrational analysis of nucleic acids. III. Conformation-dependent Raman markers of the phosphodiester backbone modeled by dimethyl phosphate
    • Guan,Y. and Thomas,G.J. (1996) Vibrational analysis of nucleic acids. III. Conformation-dependent Raman markers of the phosphodiester backbone modeled by dimethyl phosphate. J. Mol. Struct., 379, 31-41.
    • (1996) J. Mol. Struct. , vol.379 , pp. 31-41
    • Guan, Y.1    Thomas, G.J.2
  • 31
    • 0015462829 scopus 로고
    • Raman studies of nucleic acids. VII. polyU and poly-C
    • Lafleur,L., Rice,J. and Thomas,G.J. (1972) Raman studies of nucleic acids. VII. polyU and poly-C. Biopolymers, 11, 2423-2437.
    • (1972) Biopolymers , vol.11 , pp. 2423-2437
    • Lafleur, L.1    Rice, J.2    Thomas, G.J.3
  • 32
    • 0014995585 scopus 로고
    • Conformational dependence of Raman scattering intensities from polynucleotides. III. Order-disorder changes in helical structures
    • Small,E.W. and Peticolas,W.L. (1971) Conformational dependence of Raman scattering intensities from polynucleotides. III. Order-disorder changes in helical structures. Biopolymers, 10, 1377-1416.
    • (1971) Biopolymers , vol.10 , pp. 1377-1416
    • Small, E.W.1    Peticolas, W.L.2
  • 33
    • 0014985084 scopus 로고
    • Conformational dependence of Raman scattering intensities from polynucleotides
    • Small,E.W. and Peticolas,W.L. (1971) Conformational dependence of Raman scattering intensities from polynucleotides. Biopolymers, 10, 69-88.
    • (1971) Biopolymers , vol.10 , pp. 69-88
    • Small, E.W.1    Peticolas, W.L.2
  • 34
    • 0014937065 scopus 로고
    • Raman spectral studies of nucleic acids. III. Laser-excited spectra of ribosomal RNA
    • Thomas,G.J. (1970) Raman spectral studies of nucleic acids. III. Laser-excited spectra of ribosomal RNA. Biochim. Biophys. Acta, 213, 417-429.
    • (1970) Biochim. Biophys. Acta , vol.213 , pp. 417-429
    • Thomas, G.J.1
  • 35
    • 0015799403 scopus 로고
    • Raman studies of nucleic acids. 8. Estimation of RNA secondary structure from Raman scattering by phosphate group vibrations
    • Thomas,G.J. and Hartman,K.A. (1973) Raman studies of nucleic acids. 8. Estimation of RNA secondary structure from Raman scattering by phosphate group vibrations. Biochim. Biophys. Acta, 312, 311-322.
    • (1973) Biochim. Biophys. Acta , vol.312 , pp. 311-322
    • Thomas, G.J.1    Hartman, K.A.2
  • 36
    • 0015213024 scopus 로고
    • Dependence of Raman scattering on conformation of Ribosomal RNA. Biochem
    • Thomas,G.J., Medeiros,G.C. and Hartman,K.A. (1971) Dependence of Raman scattering on conformation of Ribosomal RNA. Biochem. Biophys. Res. Commun., 44, 587.
    • (1971) Biophys. Res. Commun. , vol.44 , pp. 587
    • Thomas, G.J.1    Medeiros, G.C.2    Hartman, K.A.3
  • 37
    • 0037423679 scopus 로고    scopus 로고
    • Solution structure of the Bacillus subtilis T-box antiterminator RNA: Seven nucleotide bulge characterized by stacking and flexibility
    • Gerdeman,M.S., Henkin,T.M. and Hines,J.V. (2003) Solution structure of the Bacillus subtilis T-box antiterminator RNA: Seven nucleotide bulge characterized by stacking and flexibility. J. Mol. Biol., 326, 189-201.
    • (2003) J. Mol. Biol. , vol.326 , pp. 189-201
    • Gerdeman, M.S.1    Henkin, T.M.2    Hines, J.V.3
  • 38
    • 0014946591 scopus 로고
    • Conformational dependence of Raman scattering intensities in polyadenylic acid
    • Tomlinson,B.L. and Peticolas,W.L. (1970) Conformational dependence of Raman scattering intensities in polyadenylic acid. J. Chem. Phys., 52, 2154-2156.
    • (1970) J. Chem. Phys. , vol.52 , pp. 2154-2156
    • Tomlinson, B.L.1    Peticolas, W.L.2


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