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Volumn 45, Issue 1-2, 2009, Pages 143-155

RNA phosphodiester backbone dynamics of a perdeuterated cUUCGg tetraloop RNA from phosphorus-31 NMR relaxation analysis

Author keywords

31P relaxation; Isotope labeled RNA; Model free order parameter; NMR spectroscopy

Indexed keywords

CYTOSINE; DEUTERIUM; GUANINE; NUCLEIC ACID BASE; PHOSPHODIESTERASE; PHOSPHORUS 31; PROTON; RNA; SODIUM CHLORIDE; URACIL;

EID: 69249222496     PISSN: 09252738     EISSN: 15735001     Source Type: Journal    
DOI: 10.1007/s10858-009-9343-x     Document Type: Article
Times cited : (23)

References (87)
  • 3
    • 0029082529 scopus 로고
    • Structure of the P1 helix from group I self-splicing introns
    • Allain FH, Varani G (1995) Structure of the P1 helix from group I self-splicing introns. J Mol Biol 250:333-353
    • (1995) J Mol Biol , vol.250 , pp. 333-353
    • Allain, F.H.1    Varani, G.2
  • 4
    • 26244435237 scopus 로고    scopus 로고
    • Dynamics and metal ion binding in the U6 RNA intramolecular stem-loop as analyzed by NMR
    • Blad H, Reiter NJ, Abildgaard F, Markley JL, Butcher SE (2005) Dynamics and metal ion binding in the U6 RNA intramolecular stem-loop as analyzed by NMR. J Mol Biol 353:540-555
    • (2005) J Mol Biol , vol.353 , pp. 540-555
    • Blad, H.1    Reiter, N.J.2    Abildgaard, F.3    Markley, J.L.4    Butcher, S.E.5
  • 5
    • 0032842695 scopus 로고    scopus 로고
    • 13C spin relaxation measurements in RNA: Sensitivity and resolution improvement using spin-state selective correlation experiments
    • Boisbouvier J, Brutscher B, Simorre J, Marion D (1999) 13C spin relaxation measurements in RNA: Sensitivity and resolution improvement using spin-state selective correlation experiments. J Biomol NMR 14:241-252
    • (1999) J Biomol NMR , vol.14 , pp. 241-252
    • Boisbouvier, J.1    Brutscher, B.2    Simorre, J.3    Marion, D.4
  • 6
    • 0028175795 scopus 로고
    • 13C-NMR relaxation in three DNA oligonucleotide duplexes: Model-free analysis of internal and overall motion
    • Borer PN, LaPlante SR, Kumar A, Zanatta N, Martin A, Hakkinen A, Levy GC (1994) 13C-NMR relaxation in three DNA oligonucleotide duplexes: model-free analysis of internal and overall motion. Biochemistry 33:2441-2450
    • (1994) Biochemistry , vol.33 , pp. 2441-2450
    • Borer, P.N.1    LaPlante, S.R.2    Kumar, A.3    Zanatta, N.4    Martin, A.5    Hakkinen, A.6    Levy, G.C.7
  • 7
    • 1242331368 scopus 로고    scopus 로고
    • Phosphorus-31 transverse relaxation rate measurements by NMR spectroscopy: Insight into conformational exchange along the nucleic acid backbone
    • Catoire LJ (2004) Phosphorus-31 transverse relaxation rate measurements by NMR spectroscopy: Insight into conformational exchange along the nucleic acid backbone. J Biomol NMR 28:179-184
    • (2004) J Biomol NMR , vol.28 , pp. 179-184
    • Catoire, L.J.1
  • 8
    • 33745744196 scopus 로고    scopus 로고
    • Molecular basis for temperature sensing by an RNA thermometer
    • Chowdhury S, Maris C, Allain FH, Narberhaus F (2006) Molecular basis for temperature sensing by an RNA thermometer. EMBO J 25:2487-2497
    • (2006) EMBO J , vol.25 , pp. 2487-2497
    • Chowdhury, S.1    Maris, C.2    Allain, F.H.3    Narberhaus, F.4
  • 9
    • 0025046144 scopus 로고
    • Deviations from the simple two-parameter model-free approach to the interpretation of nitrogen-15 nuclear magnetic relaxation of proteins
    • Clore GM, Szabo A, Bax A, Kay LE, Driscoll PC, Gronenborn AM (1990) Deviations from the simple two-parameter model-free approach to the interpretation of nitrogen-15 nuclear magnetic relaxation of proteins. J Am Chem Soc 112:4989-4991
    • (1990) J Am Chem Soc , vol.112 , pp. 4989-4991
    • Clore, G.M.1    Szabo, A.2    Bax, A.3    Kay, L.E.4    Driscoll, P.C.5    Gronenborn, A.M.6
  • 10
    • 0037266991 scopus 로고    scopus 로고
    • The use of model selection in the model-free analysis of protein dynamics
    • d'Auvergne EJ, Gooley PR (2003) The use of model selection in the model-free analysis of protein dynamics. J Biomol NMR 25:25-39
    • (2003) J Biomol NMR , vol.25 , pp. 25-39
    • d'Auvergne, E.J.1    Gooley, P.R.2
  • 11
    • 27244434786 scopus 로고    scopus 로고
    • Residue specific ribose and nucleobase dynamics of the cUUCGg RNA tetraloop motif by MNMR 13C relaxation
    • Duchardt E, Schwalbe H (2005) Residue specific ribose and nucleobase dynamics of the cUUCGg RNA tetraloop motif by MNMR 13C relaxation. J Biomol NMR 32:295-308
    • (2005) J Biomol NMR , vol.32 , pp. 295-308
    • Duchardt, E.1    Schwalbe, H.2
  • 12
    • 47249117197 scopus 로고    scopus 로고
    • Cytosine ribose flexibility in DNA: A combined NMR 13C spin relaxation and molecular dynamics simulation study
    • Duchardt E, Nilsson L, Schleucher J (2008) Cytosine ribose flexibility in DNA: A combined NMR 13C spin relaxation and molecular dynamics simulation study. Nucleic Acids Res 36:4211-4219
    • (2008) Nucleic Acids Res , vol.36 , pp. 4211-4219
    • Duchardt, E.1    Nilsson, L.2    Schleucher, J.3
  • 16
    • 0033629304 scopus 로고    scopus 로고
    • An improved broadband decoupling sequence for liquid crystals and solids
    • Fung BM, Khitrin AK, Ermolaev K (2000) An improved broadband decoupling sequence for liquid crystals and solids. J Magn Reson 142:97-101
    • (2000) J Magn Reson , vol.142 , pp. 97-101
    • Fung, B.M.1    Khitrin, A.K.2    Ermolaev, K.3
  • 18
    • 37549009573 scopus 로고    scopus 로고
    • Conformational dynamics of bistable RNAs studied by time-resolved NMR spectroscopy
    • Fürtig B, Wenter P, Reymond L, Richter C, Pitsch S, Schwalbe H (2007b) Conformational dynamics of bistable RNAs studied by time-resolved NMR spectroscopy. J Am Chem Soc 129:16222-16229
    • (2007) J Am Chem Soc , vol.129 , pp. 16222-16229
    • Fürtig, B.1    Wenter, P.2    Reymond, L.3    Richter, C.4    Pitsch, S.5    Schwalbe, H.6
  • 19
    • 10744232623 scopus 로고    scopus 로고
    • New NMR experiments for RNA nucleobase resonance assignment and chemical shift analysis of an RNA UUCG tetraloop
    • Fürtig B, Richter C, Bermel W, Schwalbe H (2004) New NMR experiments for RNA nucleobase resonance assignment and chemical shift analysis of an RNA UUCG tetraloop. J Biomol NMR 28:69-79
    • (2004) J Biomol NMR , vol.28 , pp. 69-79
    • Fürtig, B.1    Richter, C.2    Bermel, W.3    Schwalbe, H.4
  • 21
    • 0034328380 scopus 로고    scopus 로고
    • HYDRONMR: Prediction of NMR relaxation of globular proteins from atomic-level structures and hydrodynamic calculations
    • Garcia de la Torre J, Huertas ML, Carrasco B (2000) HYDRONMR: Prediction of NMR relaxation of globular proteins from atomic-level structures and hydrodynamic calculations. J Magn Reson 147:138-146
    • (2000) J Magn Reson , vol.147 , pp. 138-146
    • Garcia de la Torre, J.1    Huertas, M.L.2    Carrasco, B.3
  • 23
    • 33745362452 scopus 로고    scopus 로고
    • 15N relaxation measurements at several fields. Implications for backbone order parameters
    • 15N relaxation measurements at several fields. Implications for backbone order parameters. J Am Chem Soc 128:7855-7870
    • (2006) J Am Chem Soc , vol.128 , pp. 7855-7870
    • Hall, J.B.1    Fushman, D.2
  • 24
    • 33645874517 scopus 로고    scopus 로고
    • Insight into the CSA tensors of nucleobase carbons in RNA polynucleotides from solution measurements of residual CSA: Towards new long-range orientational constraints
    • Hansen AL, Al-Hashimi HM (2006) Insight into the CSA tensors of nucleobase carbons in RNA polynucleotides from solution measurements of residual CSA: Towards new long-range orientational constraints. J Magn Reson 179:299-307
    • (2006) J Magn Reson , vol.179 , pp. 299-307
    • Hansen, A.L.1    Al-Hashimi, H.M.2
  • 25
    • 67849097846 scopus 로고    scopus 로고
    • Extending the range of microsecond-to-millisecond chemical exchange detected in labeled and unlabeled nucleic acids by selective carbon R(1rho) NMR spectroscopy
    • Hansen AL, Nikolova EN, Casiano-Negroni A, Al-Hashimi HM (2009) Extending the range of microsecond-to-millisecond chemical exchange detected in labeled and unlabeled nucleic acids by selective carbon R(1rho) NMR spectroscopy. J Am Chem Soc 131:3818-3819
    • (2009) J Am Chem Soc , vol.131 , pp. 3818-3819
    • Hansen, A.L.1    Nikolova, E.N.2    Casiano-Negroni, A.3    Al-Hashimi, H.M.4
  • 26
    • 34547809997 scopus 로고    scopus 로고
    • Beyond static structures of RNA by NMR: Folding, refolding, and dynamics at atomic resolution
    • Hashim MA-H (2007) Beyond static structures of RNA by NMR: Folding, refolding, and dynamics at atomic resolution. Biopolymers 86:345-347
    • (2007) Biopolymers , vol.86 , pp. 345-347
    • Hashim, M.A.-H.1
  • 27
    • 0018987432 scopus 로고
    • 31P in macromolecules
    • 31P in macromolecules. Biopolymers 19:509-522
    • (1980) Biopolymers , vol.19 , pp. 509-522
    • Heisaburo, S.1
  • 28
    • 38249037512 scopus 로고
    • Magic-angle-spinning NMR on solid biological systems. Analysis of the origin of the spectral linewidths
    • Hemminga MA, de Jager PA, Krüse J, Lamerichs RMJN (1987) Magic-angle-spinning NMR on solid biological systems. Analysis of the origin of the spectral linewidths. J Magn Reson 1969(71):446-460
    • (1987) J Magn Reson , vol.1969 , Issue.71 , pp. 446-460
    • Hemminga, M.A.1    de Jager, P.A.2    Krüse, J.3    Lamerichs, R.M.J.N.4
  • 29
    • 0017841271 scopus 로고
    • 31P chemical-shift tensors in barium diethyl phosphate and urea-phosphoric acid: Model compounds for phospholipid head-group studies
    • Herzfeld J, Griffin RG, Haberkorn RA (1978) 31P chemical-shift tensors in barium diethyl phosphate and urea-phosphoric acid: Model compounds for phospholipid head-group studies. Biochemistry 17:2711-2718
    • (1978) Biochemistry , vol.17 , pp. 2711-2718
    • Herzfeld, J.1    Griffin, R.G.2    Haberkorn, R.A.3
  • 30
    • 0027995135 scopus 로고
    • Sequential backbone assignment in 13C-Labeled RNA via through-bond coherence transfer using three-dimensional triple resonance spectroscopy (1H, 13C, 31P) and two-dimensional hetero TOCSY
    • Heus HA, Wijmenga SS, van de Ven FJM, Hilbers CW (1994) Sequential backbone assignment in 13C-Labeled RNA via through-bond coherence transfer using three-dimensional triple resonance spectroscopy (1H, 13C, 31P) and two-dimensional hetero TOCSY. J Am Chem Soc 116:4983-4984
    • (1994) J Am Chem Soc , vol.116 , pp. 4983-4984
    • Heus, H.A.1    Wijmenga, S.S.2    van de Ven, F.J.M.3    Hilbers, C.W.4
  • 31
    • 0037225166 scopus 로고    scopus 로고
    • Bistable secondary structures of small RNAs and their structural probing by comparative imino proton NMR spectroscopy
    • Hobartner C, Micura R (2003) Bistable secondary structures of small RNAs and their structural probing by comparative imino proton NMR spectroscopy. J Mol Biol 325:421-431
    • (2003) J Mol Biol , vol.325 , pp. 421-431
    • Hobartner, C.1    Micura, R.2
  • 33
    • 0034664076 scopus 로고    scopus 로고
    • Active site dynamics in the lead-dependent ribozyme
    • Hoogstraten CG, Wank JR, Pardi A (2000) Active site dynamics in the lead-dependent ribozyme. Biochemistry 39:9951-9958
    • (2000) Biochemistry , vol.39 , pp. 9951-9958
    • Hoogstraten, C.G.1    Wank, J.R.2    Pardi, A.3
  • 34
    • 57549095175 scopus 로고    scopus 로고
    • Extensive backbone dynamics in the GCAA RNA tetraloop analyzed using (13)C NMR spin relaxation and specific isotope labeling
    • Johnson JE, Hoogstraten CG (2008) Extensive backbone dynamics in the GCAA RNA tetraloop analyzed using (13)C NMR spin relaxation and specific isotope labeling. J Am Chem Soc 130:16757-16769
    • (2008) J Am Chem Soc , vol.130 , pp. 16757-16769
    • Johnson, J.E.1    Hoogstraten, C.G.2
  • 35
    • 33747880448 scopus 로고    scopus 로고
    • Alternate-site isotopic labeling of ribonucleotides for NMR studies of ribose conformational dynamics in RNA
    • Johnson JE Jr, Julien KR, Hoogstraten CG (2006) Alternate-site isotopic labeling of ribonucleotides for NMR studies of ribose conformational dynamics in RNA. J Biomol NMR 35:261-274
    • (2006) J Biomol NMR , vol.35 , pp. 261-274
    • Johnson Jr., J.E.1    Julien, K.R.2    Hoogstraten, C.G.3
  • 36
    • 0023642547 scopus 로고
    • The dynamical structure of the RNA in alfalfa mosaic virus studied by 31P-nuclear magnetic resonance
    • Kan JH, Cremers AF, Haasnoot CA, Hilbers CW (1987) The dynamical structure of the RNA in alfalfa mosaic virus studied by 31P-nuclear magnetic resonance. Eur J Biochem 168:635-639
    • (1987) Eur J Biochem , vol.168 , pp. 635-639
    • Kan, J.H.1    Cremers, A.F.2    Haasnoot, C.A.3    Hilbers, C.W.4
  • 37
    • 44049117796 scopus 로고
    • Proton-detected hetero-TOCSY experiments with application to nucleic acids
    • Kellogg GW (1992) Proton-detected hetero-TOCSY experiments with application to nucleic acids. J Magn Reson 1969(98):176-182
    • (1992) J Magn Reson , vol.1969 , Issue.98 , pp. 176-182
    • Kellogg, G.W.1
  • 38
    • 0032253138 scopus 로고    scopus 로고
    • DNA duplex dynamics: NMR relaxation studies of a decamer with uniformly 13C-labeled purine nucleotides
    • Kojima C, Ono A, Kainosho M, James TL (1998) DNA duplex dynamics: NMR relaxation studies of a decamer with uniformly 13C-labeled purine nucleotides. J Magn Reson 135:310-333
    • (1998) J Magn Reson , vol.135 , pp. 310-333
    • Kojima, C.1    Ono, A.2    Kainosho, M.3    James, T.L.4
  • 39
    • 24344435151 scopus 로고    scopus 로고
    • Structure and dynamics of an RNA tetraloop: A joint molecular dynamics and NMR study
    • Koplin J, Mu Y, Richter C, Schwalbe H, Stock G (2005) Structure and dynamics of an RNA tetraloop: A joint molecular dynamics and NMR study. Structure 13:1255-1267
    • (2005) Structure , vol.13 , pp. 1255-1267
    • Koplin, J.1    Mu, Y.2    Richter, C.3    Schwalbe, H.4    Stock, G.5
  • 40
    • 0033520723 scopus 로고    scopus 로고
    • 15N chemical shift anisotropy in Escherichia coli ribonuclease H in solution
    • 15N chemical shift anisotropy in Escherichia coli ribonuclease H in solution. J Am Chem Soc 121:10119-10125
    • (1999) J Am Chem Soc , vol.121 , pp. 10119-10125
    • Kroenke, C.D.1    Rance, M.2    Palmer, A.G.3
  • 41
    • 0025762608 scopus 로고
    • Interaction of berenil with the EcoRI dodecamer d(CGCGAATTCGCG)2 in solution studied by NMR
    • Lane AN, Jenkins TC, Brown T, Neidle S (1991) Interaction of berenil with the EcoRI dodecamer d(CGCGAATTCGCG)2 in solution studied by NMR. Biochemistry 30:1372-1385
    • (1991) Biochemistry , vol.30 , pp. 1372-1385
    • Lane, A.N.1    Jenkins, T.C.2    Brown, T.3    Neidle, S.4
  • 42
    • 34548761368 scopus 로고    scopus 로고
    • Ligand-induced folding of the thiM TPP riboswitch investigated by a structure-based fluorescence spectroscopic approach
    • Lang K, Rieder R, Micura R (2007) Ligand-induced folding of the thiM TPP riboswitch investigated by a structure-based fluorescence spectroscopic approach. Nucleic Acids Res 35:5370-5378
    • (2007) Nucleic Acids Res , vol.35 , pp. 5370-5378
    • Lang, K.1    Rieder, R.2    Micura, R.3
  • 43
    • 33646719091 scopus 로고
    • Model-free approach to the interpretation of nuclear magnetic resonance relaxation in macromolecules. 1. Theory and range of validity
    • Lipari G, Szabo A (1982a) Model-free approach to the interpretation of nuclear magnetic resonance relaxation in macromolecules. 1. Theory and range of validity. J Am Chem Soc 104:4546-4559
    • (1982) J Am Chem Soc , vol.104 , pp. 4546-4559
    • Lipari, G.1    Szabo, A.2
  • 44
    • 33845553743 scopus 로고
    • Model-free approach to the interpretation of nuclear magnetic resonance relaxation in macromolecules. 2. Analysis of experimental results
    • Lipari G, Szabo A (1982b) Model-free approach to the interpretation of nuclear magnetic resonance relaxation in macromolecules. 2. Analysis of experimental results. J Am Chem Soc 104:4559-4570
    • (1982) J Am Chem Soc , vol.104 , pp. 4559-4570
    • Lipari, G.1    Szabo, A.2
  • 45
    • 17744366182 scopus 로고    scopus 로고
    • Chemical shift anisotropy tensors of carbonyl, nitrogen, and amide proton nuclei in proteins through cross-correlated relaxation in NMR spectroscopy
    • Loth K, Pelupessy P, Bodenhausen G (2005) Chemical shift anisotropy tensors of carbonyl, nitrogen, and amide proton nuclei in proteins through cross-correlated relaxation in NMR spectroscopy. J Am Chem Soc 127:6062-6068
    • (2005) J Am Chem Soc , vol.127 , pp. 6062-6068
    • Loth, K.1    Pelupessy, P.2    Bodenhausen, G.3
  • 46
    • 0035830962 scopus 로고    scopus 로고
    • Structure of a eukaryotic decoding region A-site RNA
    • Lynch SR, Puglisi JD (2001) Structure of a eukaryotic decoding region A-site RNA. J Mol Biol 306:1023-1035
    • (2001) J Mol Biol , vol.306 , pp. 1023-1035
    • Lynch, S.R.1    Puglisi, J.D.2
  • 47
    • 0027289394 scopus 로고
    • A theoretical study of rotational diffusion models for rod-shaped viruses. The influence of motion on 31P nuclear magnetic resonance lineshapes and transversal relaxation
    • Magusin PC, Hemminga MA (1993) A theoretical study of rotational diffusion models for rod-shaped viruses. The influence of motion on 31P nuclear magnetic resonance lineshapes and transversal relaxation. Biophys J 64:1851-1860
    • (1993) Biophys J , vol.64 , pp. 1851-1860
    • Magusin, P.C.1    Hemminga, M.A.2
  • 48
    • 0028178472 scopus 로고
    • Analysis of 31P MAS NMR spectra and transversal relaxation of bacteriophage M13 and tobacco mosaic virus
    • Magusin PC, Hemminga MA (1994) Analysis of 31P MAS NMR spectra and transversal relaxation of bacteriophage M13 and tobacco mosaic virus. Biophys J 66:1197-1208
    • (1994) Biophys J , vol.66 , pp. 1197-1208
    • Magusin, P.C.1    Hemminga, M.A.2
  • 49
    • 0028941877 scopus 로고
    • Backbone dynamics of Escherichia coli ribonuclease HI: Correlations with structure and function in an active enzyme
    • Mandel AM, Akke M, Palmer IIIAG (1995) Backbone dynamics of Escherichia coli ribonuclease HI: Correlations with structure and function in an active enzyme. J Mol Biol 246:144-163
    • (1995) J Mol Biol , vol.246 , pp. 144-163
    • Mandel, A.M.1    Akke, M.2    Palmer III, A.G.3
  • 50
    • 0028008137 scopus 로고
    • Three-dimensional triple-resonance 1H, 13C, 31P experiment: Sequential through-bond correlation of ribose protons and intervening phosphorus along the RNA oligonucleotide backbone
    • Marino JP, Schwalbe H, Anklin C, Bermel W, Crothers DM, Griesinger C (1994) Three-dimensional triple-resonance 1H, 13C, 31P experiment: sequential through-bond correlation of ribose protons and intervening phosphorus along the RNA oligonucleotide backbone. J Am Chem Soc 116:6472-6473
    • (1994) J Am Chem Soc , vol.116 , pp. 6472-6473
    • Marino, J.P.1    Schwalbe, H.2    Anklin, C.3    Bermel, W.4    Crothers, D.M.5    Griesinger, C.6
  • 51
    • 0029202877 scopus 로고
    • Sequential correlation of anomeric ribose protons and intervening phosphorus in RNA oligonucleotides by a 1H, 13C, 31P triple resonance experiment: HCP-CCH-TOCSY
    • Marino JP, Schwalbe H, Anklin C, Bermel W, Crothers DM, Griesinger C (1995) Sequential correlation of anomeric ribose protons and intervening phosphorus in RNA oligonucleotides by a 1H, 13C, 31P triple resonance experiment: HCP-CCH-TOCSY. J Biomol NMR 5:87-92
    • (1995) J Biomol NMR , vol.5 , pp. 87-92
    • Marino, J.P.1    Schwalbe, H.2    Anklin, C.3    Bermel, W.4    Crothers, D.M.5    Griesinger, C.6
  • 52
    • 0031577316 scopus 로고    scopus 로고
    • Theoretical studies of an exceptionally stable RNA tetraloop: Observation of convergence from an incorrect NMR structure to the correct one using unrestrained molecular dynamics
    • Miller JL, Kollman PA (1997) Theoretical studies of an exceptionally stable RNA tetraloop: Observation of convergence from an incorrect NMR structure to the correct one using unrestrained molecular dynamics. J Mol Biol 270:436-450
    • (1997) J Mol Biol , vol.270 , pp. 436-450
    • Miller, J.L.1    Kollman, P.A.2
  • 54
    • 0037061982 scopus 로고    scopus 로고
    • Molecular dynamics of the tRNAAla acceptor stem: Comparison between continuum reaction field and particle-mesh Ewald electrostatic treatments
    • Nina M, Simonson T (2002) Molecular dynamics of the tRNAAla acceptor stem: comparison between continuum reaction field and particle-mesh Ewald electrostatic treatments. J Phys Chem B 106:3696-3705
    • (2002) J Phys Chem B , vol.106 , pp. 3696-3705
    • Nina, M.1    Simonson, T.2
  • 55
    • 51749105637 scopus 로고    scopus 로고
    • Changes in dynamics of SRE-RNA on binding to the VTS1p-SAM domain studied by 13C NMR relaxation
    • Oberstrass FC, Allain FH, Ravindranathan S (2008) Changes in dynamics of SRE-RNA on binding to the VTS1p-SAM domain studied by 13C NMR relaxation. J Am Chem Soc 130:12007-12020
    • (2008) J Am Chem Soc , vol.130 , pp. 12007-12020
    • Oberstrass, F.C.1    Allain, F.H.2    Ravindranathan, S.3
  • 57
    • 0020489968 scopus 로고
    • Carbon-13 NMR relaxation studies of pre-melt structural dynamics in [4-13C-uracil] labeled E. coli transfer RNAIVal
    • Olsen JI, Schweizer MP, Walkiw IJ, Hamill WD Jr, Horton WJ, Grant DM (1982) Carbon-13 NMR relaxation studies of pre-melt structural dynamics in [4-13C-uracil] labeled E. coli transfer RNAIVal. Nucleic Acids Res 10:4449-4464
    • (1982) Nucleic Acids Res , vol.10 , pp. 4449-4464
    • Olsen, J.I.1    Schweizer, M.P.2    Walkiw, I.J.3    Hamill Jr., W.D.4    Horton, W.J.5    Grant, D.M.6
  • 58
    • 45949086050 scopus 로고    scopus 로고
    • 31P chemical shift tensors for canonical and non-canonical conformations of nucleic acids: A DFT study and NMR implications
    • Precechtelova J, Padrta P, Munzarova ML, Sklenar V (2008) 31P chemical shift tensors for canonical and non-canonical conformations of nucleic acids: A DFT study and NMR implications. J Phys Chem B 112:3470-3478
    • (2008) J Phys Chem B , vol.112 , pp. 3470-3478
    • Precechtelova, J.1    Padrta, P.2    Munzarova, M.L.3    Sklenar, V.4
  • 59
    • 0842329145 scopus 로고    scopus 로고
    • A solid-state NMR study of the fast and slow dynamics of collagen fibrils at varying hydration levels
    • Reichert D, Pascui O, deAzevedo ER, Bonagamba TJ, Arnold K, Huster D (2004) A solid-state NMR study of the fast and slow dynamics of collagen fibrils at varying hydration levels. Magn Reson Chem 42:276-284
    • (2004) Magn Reson Chem , vol.42 , pp. 276-284
    • Reichert, D.1    Pascui, O.2    deAzevedo, E.R.3    Bonagamba, T.J.4    Arnold, K.5    Huster, D.6
  • 60
    • 34447548824 scopus 로고    scopus 로고
    • Ligand-induced folding of the adenosine deaminase A-riboswitch and implications on riboswitch translational control
    • Rieder R, Lang K, Graber D, Micura R (2007) Ligand-induced folding of the adenosine deaminase A-riboswitch and implications on riboswitch translational control. Chembiochem 8:896-902
    • (2007) Chembiochem , vol.8 , pp. 896-902
    • Rieder, R.1    Lang, K.2    Graber, D.3    Micura, R.4
  • 61
    • 0021103713 scopus 로고
    • Internal dynamics of transfer ribonucleic acid determined by nuclear magnetic resonance of carbon-13-enriched ribose carbon 1
    • Schmidt PG, Playl T, Agris PF (1983) Internal dynamics of transfer ribonucleic acid determined by nuclear magnetic resonance of carbon-13-enriched ribose carbon 1. Biochemistry 22:1408-1415
    • (1983) Biochemistry , vol.22 , pp. 1408-1415
    • Schmidt, P.G.1    Playl, T.2    Agris, P.F.3
  • 62
    • 0023667720 scopus 로고
    • Internal motions in yeast phenylalanine transfer RNA from 13C NMR relaxation rates of modified base methyl groups: A model-free approach
    • Schmidt PG, Sierzputowska-Gracz H, Agris PF (1987) Internal motions in yeast phenylalanine transfer RNA from 13C NMR relaxation rates of modified base methyl groups: A model-free approach. Biochemistry 26:8529-8534
    • (1987) Biochemistry , vol.26 , pp. 8529-8534
    • Schmidt, P.G.1    Sierzputowska-Gracz, H.2    Agris, P.F.3
  • 63
    • 34247242053 scopus 로고    scopus 로고
    • Structures of RNA switches: Insight into molecular recognition and tertiary structure
    • Schwalbe H, Buck J, Furtig B, Noeske J, Wohnert J (2007) Structures of RNA switches: Insight into molecular recognition and tertiary structure. Angew Chem Int Ed Engl 46:1212-1219
    • (2007) Angew Chem Int Ed Engl , vol.46 , pp. 1212-1219
    • Schwalbe, H.1    Buck, J.2    Furtig, B.3    Noeske, J.4    Wohnert, J.5
  • 64
    • 19444373245 scopus 로고    scopus 로고
    • 13C NMR relaxation studies of RNA base and ribose nuclei reveal a complex pattern of motions in the RNA binding site for human U1A protein
    • Shajani Z, Varani G (2005) 13C NMR relaxation studies of RNA base and ribose nuclei reveal a complex pattern of motions in the RNA binding site for human U1A protein. J Mol Biol 349:699-715
    • (2005) J Mol Biol , vol.349 , pp. 699-715
    • Shajani, Z.1    Varani, G.2
  • 65
    • 34547726270 scopus 로고    scopus 로고
    • NMR studies of dynamics in RNA and DNA by 13C relaxation
    • Shajani Z, Varani G (2007) NMR studies of dynamics in RNA and DNA by 13C relaxation. Biopolymers 86:348-359
    • (2007) Biopolymers , vol.86 , pp. 348-359
    • Shajani, Z.1    Varani, G.2
  • 66
    • 34249078827 scopus 로고    scopus 로고
    • Binding of U1A protein changes RNA dynamics as observed by 13C NMR relaxation studies
    • Shajani Z, Drobny G, Varani G (2007) Binding of U1A protein changes RNA dynamics as observed by 13C NMR relaxation studies. Biochemistry 46:5875-5883
    • (2007) Biochemistry , vol.46 , pp. 5875-5883
    • Shajani, Z.1    Drobny, G.2    Varani, G.3
  • 67
    • 24344472587 scopus 로고    scopus 로고
    • Iron responsive element RNA flexibility described by NMR and isotropic reorientational eigenmode dynamics
    • Showalter SA, Baker NA, Tang C, Hall KB (2005) Iron responsive element RNA flexibility described by NMR and isotropic reorientational eigenmode dynamics. J Biomol NMR 32:179-193
    • (2005) J Biomol NMR , vol.32 , pp. 179-193
    • Showalter, S.A.1    Baker, N.A.2    Tang, C.3    Hall, K.B.4
  • 68
    • 0032554612 scopus 로고    scopus 로고
    • Dynamics in psoralen-damaged DNA by 1H-detected natural abundance 13C NMR spectroscopy
    • Spielmann HP (1998) Dynamics in psoralen-damaged DNA by 1H-detected natural abundance 13C NMR spectroscopy. Biochemistry 37:5426-5438
    • (1998) Biochemistry , vol.37 , pp. 5426-5438
    • Spielmann, H.P.1
  • 69
    • 0017787255 scopus 로고
    • Phosphorus-31 chemical shift anisotropy in solid nucleic acids
    • Terao T, Matsui S, Akasaka K (1977) Phosphorus-31 chemical shift anisotropy in solid nucleic acids. J Am Chem Soc 99:6136-6138
    • (1977) J Am Chem Soc , vol.99 , pp. 6136-6138
    • Terao, T.1    Matsui, S.2    Akasaka, K.3
  • 70
    • 20444478991 scopus 로고    scopus 로고
    • Riboswitches as versatile gene control elements
    • Tucker BJ, Breaker RR (2005) Riboswitches as versatile gene control elements. Curr Opin Struct Biol 15:342-348
    • (2005) Curr Opin Struct Biol , vol.15 , pp. 342-348
    • Tucker, B.J.1    Breaker, R.R.2
  • 71
    • 18644374104 scopus 로고    scopus 로고
    • A suite of 2H NMR spin relaxation experiments for the measurement of RNA dynamics
    • Vallurupalli P, Kay LE (2005) A suite of 2H NMR spin relaxation experiments for the measurement of RNA dynamics. J Am Chem Soc 127:6893-6901
    • (2005) J Am Chem Soc , vol.127 , pp. 6893-6901
    • Vallurupalli, P.1    Kay, L.E.2
  • 72
    • 0026348081 scopus 로고
    • RNA structure and NMR spectroscopy
    • Varani G, Tinoco I Jr (1991) RNA structure and NMR spectroscopy. Q Rev Biophys 24:479-532
    • (1991) Q Rev Biophys , vol.24 , pp. 479-532
    • Varani, G.1    Tinoco Jr., I.2
  • 73
    • 33846284150 scopus 로고    scopus 로고
    • What NMR relaxation can tell us about the internal motion of an RNA Hairpin: A molecular dynamics simulation study
    • Villa A, Stock G (2006) What NMR relaxation can tell us about the internal motion of an RNA Hairpin: a molecular dynamics simulation study. J. Chem. Theory Comput. 2:1228-1236
    • (2006) J. Chem. Theory Comput. , vol.2 , pp. 1228-1236
    • Villa, A.1    Stock, G.2
  • 74
    • 38649086360 scopus 로고    scopus 로고
    • Molecular dynamics simulation of the structure, dynamics, and thermostability of the RNA hairpins uCACGg and cUUCGg
    • Villa A, Widjajakusuma E, Stock G (2008) Molecular dynamics simulation of the structure, dynamics, and thermostability of the RNA hairpins uCACGg and cUUCGg. J Phys Chem B 112:134-142
    • (2008) J Phys Chem B , vol.112 , pp. 134-142
    • Villa, A.1    Widjajakusuma, E.2    Stock, G.3
  • 75
    • 61949483551 scopus 로고    scopus 로고
    • Structure and dynamics of the ApA, ApC, CpA, and CpC RNA dinucleoside monophosphates resolved with NMR scalar spin-spin couplings
    • Vokacova Z, Budesinsky M, Rosenberg I, Schneider B, Sponer J, Sychrovsky V (2009) Structure and dynamics of the ApA, ApC, CpA, and CpC RNA dinucleoside monophosphates resolved with NMR scalar spin-spin couplings. J Phys Chem B 113:1182-1191
    • (2009) J Phys Chem B , vol.113 , pp. 1182-1191
    • Vokacova, Z.1    Budesinsky, M.2    Rosenberg, I.3    Schneider, B.4    Sponer, J.5    Sychrovsky, V.6
  • 78
    • 33745015517 scopus 로고    scopus 로고
    • Kinetics of RNA refolding in dynamic equilibrium by 1 H-detected 15 N exchange NMR spectroscopy
    • Wenter P, Bodenhausen G, Dittmer J, Pitsch S (2006a) Kinetics of RNA refolding in dynamic equilibrium by 1 H-detected 15 N exchange NMR spectroscopy. J Am Chem Soc 128:7579-7587
    • (2006) J Am Chem Soc , vol.128 , pp. 7579-7587
    • Wenter, P.1    Bodenhausen, G.2    Dittmer, J.3    Pitsch, S.4
  • 79
    • 33644878851 scopus 로고    scopus 로고
    • A caged uridine for the selective preparation of an RNA fold and determination of its refolding kinetics by real-time NMR
    • Wenter P, Fürtig B, Hainard A, Schwalbe H, Pitsch S (2006b) A caged uridine for the selective preparation of an RNA fold and determination of its refolding kinetics by real-time NMR. Chembiochem 7:417-420
    • (2006) Chembiochem , vol.7 , pp. 417-420
    • Wenter, P.1    Fürtig, B.2    Hainard, A.3    Schwalbe, H.4    Pitsch, S.5
  • 80
    • 0033064123 scopus 로고    scopus 로고
    • Unrestrained stochastic dynamics simulations of the UUCG tetraloop using an implicit solvation model
    • Williams DJ, Hall KB (1999) Unrestrained stochastic dynamics simulations of the UUCG tetraloop using an implicit solvation model. Biophys J 76:3192-3205
    • (1999) Biophys J , vol.76 , pp. 3192-3205
    • Williams, D.J.1    Hall, K.B.2
  • 81
    • 0034677665 scopus 로고    scopus 로고
    • Experimental and theoretical studies of the effects of deoxyribose substitutions on the stability of the UUCG tetraloop
    • Williams DJ, Hall KB (2000) Experimental and theoretical studies of the effects of deoxyribose substitutions on the stability of the UUCG tetraloop. J Mol Biol 297:251-265
    • (2000) J Mol Biol , vol.297 , pp. 251-265
    • Williams, D.J.1    Hall, K.B.2
  • 82
    • 0034744390 scopus 로고    scopus 로고
    • Thermodynamics of 2′-ribose substitutions in UUCG tetraloops
    • Williams DJ, Boots JL, Hall KB (2001) Thermodynamics of 2′-ribose substitutions in UUCG tetraloops. RNA 7:44-53
    • (2001) RNA , vol.7 , pp. 44-53
    • Williams, D.J.1    Boots, J.L.2    Hall, K.B.3
  • 83
    • 0024539551 scopus 로고
    • Multinuclear NMR studies of DNA hairpins. 1. Structure and dynamics of d(CGCGTTGTTCGCG)
    • Williamson JR, Boxer SG (1989a) Multinuclear NMR studies of DNA hairpins. 1. Structure and dynamics of d(CGCGTTGTTCGCG). Biochemistry 28:2819-2831
    • (1989) Biochemistry , vol.28 , pp. 2819-2831
    • Williamson, J.R.1    Boxer, S.G.2
  • 84
    • 0024523061 scopus 로고
    • Multinuclear NMR studies of DNA hairpins. 2. Sequence-dependent structural variations
    • Williamson JR, Boxer SG (1989b) Multinuclear NMR studies of DNA hairpins. 2. Sequence-dependent structural variations. Biochemistry 28:2831-2836
    • (1989) Biochemistry , vol.28 , pp. 2831-2836
    • Williamson, J.R.1    Boxer, S.G.2
  • 85
    • 27744519876 scopus 로고    scopus 로고
    • Riboswitches and the role of noncoding RNAs in bacterial metabolic control
    • Winkler WC (2005) Riboswitches and the role of noncoding RNAs in bacterial metabolic control. Curr Opin Chem Biol 9:594-602
    • (2005) Curr Opin Chem Biol , vol.9 , pp. 594-602
    • Winkler, W.C.1
  • 86
    • 31944446215 scopus 로고    scopus 로고
    • Resolving the motional modes that code for RNA adaptation
    • Zhang Q, Sun X, Watt ED, Al-Hashimi HM (2006) Resolving the motional modes that code for RNA adaptation. Science 311:653-656
    • (2006) Science , vol.311 , pp. 653-656
    • Zhang, Q.1    Sun, X.2    Watt, E.D.3    Al-Hashimi, H.M.4
  • 87
    • 37549017736 scopus 로고    scopus 로고
    • Visualizing spatially correlated dynamics that directs RNA conformational transitions
    • Zhang Q, Stelzer AC, Fisher CK, Al-Hashimi HM (2007) Visualizing spatially correlated dynamics that directs RNA conformational transitions. Nature 450:1263-1267
    • (2007) Nature , vol.450 , pp. 1263-1267
    • Zhang, Q.1    Stelzer, A.C.2    Fisher, C.K.3    Al-Hashimi, H.M.4


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