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Volumn 46, Issue 44, 2007, Pages 12665-12678

NMR reveals the absence of hydrogen bonding in adjacent UU and AG mismatches in an isolated internal loop from ribosomal RNA

Author keywords

[No Author keywords available]

Indexed keywords

CRYSTAL STRUCTURE; FREE ENERGY; HYDROGEN BONDS; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEOTIDES;

EID: 35848966148     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi700802s     Document Type: Article
Times cited : (18)

References (82)
  • 1
    • 0020417286 scopus 로고
    • Self-splicing RNA: Autoexcision and autocyclization of the ribosomal RNA intervening sequence of Tetrahymena
    • Kruger, K., Grabowski, P. J., Zaug, A. J., Sands, J., Gottschling, D. E., and Cech, T. R. (1982) Self-splicing RNA: autoexcision and autocyclization of the ribosomal RNA intervening sequence of Tetrahymena, Cell 31, 147-157.
    • (1982) Cell , vol.31 , pp. 147-157
    • Kruger, K.1    Grabowski, P.J.2    Zaug, A.J.3    Sands, J.4    Gottschling, D.E.5    Cech, T.R.6
  • 2
    • 0021013526 scopus 로고
    • The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme
    • Guerrier-Takada, C., Gardiner, K., Marsh, T., Pace, N., and Altman, S. (1983) The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme, Cell 35, 849-857.
    • (1983) Cell , vol.35 , pp. 849-857
    • Guerrier-Takada, C.1    Gardiner, K.2    Marsh, T.3    Pace, N.4    Altman, S.5
  • 3
    • 0037062951 scopus 로고    scopus 로고
    • RNA interference
    • Hannon, G. J. (2002) RNA interference, Nature 418, 244-251.
    • (2002) Nature , vol.418 , pp. 244-251
    • Hannon, G.J.1
  • 4
    • 0034737298 scopus 로고    scopus 로고
    • RNAi: Double-stranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals
    • Zamore, P. D., Tuschl, T., Sharp, P. A., and Battel, D. P. (2000) RNAi: double-stranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals, Cell 101, 25-33.
    • (2000) Cell , vol.101 , pp. 25-33
    • Zamore, P.D.1    Tuschl, T.2    Sharp, P.A.3    Battel, D.P.4
  • 5
    • 0037031576 scopus 로고    scopus 로고
    • Single-stranded antisense siRNAs guide target RNA cleavage in RNAi
    • Martinez, J., Patkaniowska, A., Urlaub, H., Luhrmann, R., and Tuschl, T. (2002) Single-stranded antisense siRNAs guide target RNA cleavage in RNAi, Cell 110, 563-574.
    • (2002) Cell , vol.110 , pp. 563-574
    • Martinez, J.1    Patkaniowska, A.2    Urlaub, H.3    Luhrmann, R.4    Tuschl, T.5
  • 6
    • 33845700514 scopus 로고    scopus 로고
    • Riboswitches as antibacterial drug targets
    • Blount, K. F., and Breaker, R. R. (2006) Riboswitches as antibacterial drug targets, Nat. Biotechnol. 24, 1558-1564.
    • (2006) Nat. Biotechnol , vol.24 , pp. 1558-1564
    • Blount, K.F.1    Breaker, R.R.2
  • 7
    • 0015216137 scopus 로고
    • Estimation of secondary structure in ribonucleic acids
    • Tinoco, I. Jr., Uhlenbeck, O. C., and Levine, M. D. (1971) Estimation of secondary structure in ribonucleic acids, Nature 230, 362-367.
    • (1971) Nature , vol.230 , pp. 362-367
    • Tinoco Jr., I.1    Uhlenbeck, O.C.2    Levine, M.D.3
  • 8
    • 0019876473 scopus 로고
    • Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information
    • Zuker, M., and Stiegler, P. (1981) Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information, Nucleic Acids Res. 9, 133-148.
    • (1981) Nucleic Acids Res , vol.9 , pp. 133-148
    • Zuker, M.1    Stiegler, P.2
  • 9
    • 0033591465 scopus 로고    scopus 로고
    • Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure
    • Mathews, D. H., Sabina, J., Zuker, M., and Turner, D. H. (1999) Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure, J. Mol. Biol. 288, 911-940.
    • (1999) J. Mol. Biol , vol.288 , pp. 911-940
    • Mathews, D.H.1    Sabina, J.2    Zuker, M.3    Turner, D.H.4
  • 10
    • 33744790273 scopus 로고    scopus 로고
    • Prediction of RNA secondary structure by free energy minimization
    • Mathews, D. H., and Turner, D. H. (2006) Prediction of RNA secondary structure by free energy minimization, Curr. Opin. Struct. Biol. 16, 270-278.
    • (2006) Curr. Opin. Struct. Biol , vol.16 , pp. 270-278
    • Mathews, D.H.1    Turner, D.H.2
  • 11
    • 0033524952 scopus 로고    scopus 로고
    • A dynamic programming algorithm for RNA structure prediction including pseudoknots
    • Rivas, E., and Eddy, S. R. (1999) A dynamic programming algorithm for RNA structure prediction including pseudoknots, J. Mol. Biol. 285, 2053-2068.
    • (1999) J. Mol. Biol , vol.285 , pp. 2053-2068
    • Rivas, E.1    Eddy, S.R.2
  • 13
    • 0036301332 scopus 로고    scopus 로고
    • Secondary structure prediction for aligned RNA sequences
    • Hofacker, I. L., Fekete, M., and Stadler, P. F. (2002) Secondary structure prediction for aligned RNA sequences, J. Mol. Biol. 319, 1059-1066.
    • (2002) J. Mol. Biol , vol.319 , pp. 1059-1066
    • Hofacker, I.L.1    Fekete, M.2    Stadler, P.F.3
  • 14
    • 3042554001 scopus 로고    scopus 로고
    • An algorithm for computing nucleic acid base-pairing probabilities including pseudoknots
    • Dirks, R. M., and Pierce, N. A. (2004) An algorithm for computing nucleic acid base-pairing probabilities including pseudoknots, J. Comput. Chem. 25, 1295-1304.
    • (2004) J. Comput. Chem , vol.25 , pp. 1295-1304
    • Dirks, R.M.1    Pierce, N.A.2
  • 15
    • 25844447772 scopus 로고    scopus 로고
    • HotKnots: Heuristic prediction of RNA secondary structures including pseudoknots
    • Ren, J., Rastegari, B., Condon, A., and Hoos, H. H. (2005) HotKnots: heuristic prediction of RNA secondary structures including pseudoknots, RNA 11, 1494-1504.
    • (2005) RNA 11 , pp. 1494-1504
    • Ren, J.1    Rastegari, B.2    Condon, A.3    Hoos, H.H.4
  • 16
    • 0002549050 scopus 로고    scopus 로고
    • Thermodynamics of RNA Secondary Structure Formation
    • Soll, D, Moore, P. B, and Nishimura, S, Eds, pp, Elsevier Science Ltd, Oxford, England
    • Xia, T., Mathews, D. H., and Turner, D. H. (1999) Thermodynamics of RNA Secondary Structure Formation, in Prebiotic Chemistry, Molecular Fossils, Nucleotides, and RNA (Soll, D., Moore, P. B., and Nishimura, S., Eds.) pp 21-47, Elsevier Science Ltd., Oxford, England.
    • (1999) Prebiotic Chemistry, Molecular Fossils, Nucleotides, and RNA , pp. 21-47
    • Xia, T.1    Mathews, D.H.2    Turner, D.H.3
  • 17
    • 0028917227 scopus 로고
    • A periodic table of symmetric tandem mismatches in RNA
    • Wu, M., McDowell, J. A., and Turner, D. H. (1995) A periodic table of symmetric tandem mismatches in RNA, Biochemistry 34, 3204-3211.
    • (1995) Biochemistry , vol.34 , pp. 3204-3211
    • Wu, M.1    McDowell, J.A.2    Turner, D.H.3
  • 19
    • 2442626706 scopus 로고    scopus 로고
    • Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure
    • Mathews, D. H., Disney, M. D., Childs, J. L., Schroeder, S. J., Zuker, M., and Turner, D. H. (2004) Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure, Proc. Natl. Acad. Sci. U.S.A. 101, 7287-7292.
    • (2004) Proc. Natl. Acad. Sci. U.S.A , vol.101 , pp. 7287-7292
    • Mathews, D.H.1    Disney, M.D.2    Childs, J.L.3    Schroeder, S.J.4    Zuker, M.5    Turner, D.H.6
  • 20
    • 29244457847 scopus 로고    scopus 로고
    • Thermodynamics of RNA duplexes with tandem mismatches containing a uracil-uracil pair flanked by C·G/G·C or G·C/A·U closing base pairs
    • Bourdelat-Parks, B. N., and Wartell, R. M. (2005) Thermodynamics of RNA duplexes with tandem mismatches containing a uracil-uracil pair flanked by C·G/G·C or G·C/A·U closing base pairs, Biochemistry 44, 16710-16717.
    • (2005) Biochemistry , vol.44 , pp. 16710-16717
    • Bourdelat-Parks, B.N.1    Wartell, R.M.2
  • 21
    • 0030815643 scopus 로고    scopus 로고
    • Thermodynamics of nonsymmetric tandem mismatches adjacent to G·C base pairs in RNA
    • Xia, T., McDowell, J. A., and Turner, D. H. (1997) Thermodynamics of nonsymmetric tandem mismatches adjacent to G·C base pairs in RNA, Biochemistry 36, 12486-12497.
    • (1997) Biochemistry , vol.36 , pp. 12486-12497
    • Xia, T.1    McDowell, J.A.2    Turner, D.H.3
  • 22
    • 0030929777 scopus 로고    scopus 로고
    • 2 by two-dimensional NMR and the iterative relaxation matrix approach
    • 2 by two-dimensional NMR and the iterative relaxation matrix approach, Biochemistry 36, 4449-4460.
    • (1997) Biochemistry , vol.36 , pp. 4449-4460
    • Wu, M.1    SantaLucia Jr., J.2    Turner, D.H.3
  • 23
    • 0026565488 scopus 로고
    • Three-dimensional heteronuclear NMR studies of RNA
    • Nikonowicz, E. P., and Pardi, A. (1992) Three-dimensional heteronuclear NMR studies of RNA, Nature 355, 184-186.
    • (1992) Nature , vol.355 , pp. 184-186
    • Nikonowicz, E.P.1    Pardi, A.2
  • 24
    • 0028902990 scopus 로고
    • Structure of an RNA double helix including uracil-uracil base pairs in an internal loop
    • Baeyens, K. J., De Bondt, H. L., and Holbrook, S. R. (1995) Structure of an RNA double helix including uracil-uracil base pairs in an internal loop, Nat. Struct. Biol. 2, 56-62.
    • (1995) Nat. Struct. Biol , vol.2 , pp. 56-62
    • Baeyens, K.J.1    De Bondt, H.L.2    Holbrook, S.R.3
  • 25
    • 0030586821 scopus 로고    scopus 로고
    • The structure of an RNA dodecamer shows how tandem U-U base pairs increase the range of stable RNA structures and the diversity of recognition sites
    • Lietzke, S. E., Barnes, C. L., Berglund, J. A., and Kundrot, C. E. (1996) The structure of an RNA dodecamer shows how tandem U-U base pairs increase the range of stable RNA structures and the diversity of recognition sites, Structure 4, 917-930.
    • (1996) Structure , vol.4 , pp. 917-930
    • Lietzke, S.E.1    Barnes, C.L.2    Berglund, J.A.3    Kundrot, C.E.4
  • 26
    • 0028085964 scopus 로고
    • The stability and structure of tandem GA mismatches in RNA depend on closing base pairs
    • Walter, A. E., Wu, M., and Turner, D. H. (1994) The stability and structure of tandem GA mismatches in RNA depend on closing base pairs, Biochemistry 33, 11349-11354.
    • (1994) Biochemistry , vol.33 , pp. 11349-11354
    • Walter, A.E.1    Wu, M.2    Turner, D.H.3
  • 27
    • 0019810825 scopus 로고
    • The binding site for ribosomal protein L11 within 23 S ribosomal RNA of Escherichia coli
    • Schmidt, F. J., Thompson, J., Lee, K., Dijk, J., and Cundliffe, E. (1981) The binding site for ribosomal protein L11 within 23 S ribosomal RNA of Escherichia coli, J. Biol. Chem. 256, 12301-12305.
    • (1981) J. Biol. Chem , vol.256 , pp. 12301-12305
    • Schmidt, F.J.1    Thompson, J.2    Lee, K.3    Dijk, J.4    Cundliffe, E.5
  • 28
    • 0025999688 scopus 로고
    • Recognition of the highly conserved GTPase center of 23S ribosomal RNA by ribosomal protein L11 and the antibiotic thiostrepton
    • Ryan, P. C., Lu, M., and Draper, D. E. (1991) Recognition of the highly conserved GTPase center of 23S ribosomal RNA by ribosomal protein L11 and the antibiotic thiostrepton, J. Mol. Biol. 221, 1257-1268.
    • (1991) J. Mol. Biol , vol.221 , pp. 1257-1268
    • Ryan, P.C.1    Lu, M.2    Draper, D.E.3
  • 29
    • 0019483431 scopus 로고
    • Concerning the mode of action of micrococcin upon bacterial protein synthesis
    • Cundliffe, E., and Thompson, J. (1981) Concerning the mode of action of micrococcin upon bacterial protein synthesis, Eur. J. Biochem. 118, 47-52.
    • (1981) Eur. J. Biochem , vol.118 , pp. 47-52
    • Cundliffe, E.1    Thompson, J.2
  • 30
    • 0028102703 scopus 로고
    • Bases defining an ammonium and magnesium ion-dependent tertiary structure within the large subunit ribosomal RNA
    • Lu, M., and Draper, D. E. (1994) Bases defining an ammonium and magnesium ion-dependent tertiary structure within the large subunit ribosomal RNA, J. Mol. Biol. 244, 572-585.
    • (1994) J. Mol. Biol , vol.244 , pp. 572-585
    • Lu, M.1    Draper, D.E.2
  • 31
    • 0028237035 scopus 로고
    • Stabilization of RNA structure by Mg ions. Specific and non-specific effects
    • Laing, L. G., Gluick, T. C., and Draper, D. E. (1994) Stabilization of RNA structure by Mg ions. Specific and non-specific effects, J. Mol. Biol. 237, 577-587.
    • (1994) J. Mol. Biol , vol.237 , pp. 577-587
    • Laing, L.G.1    Gluick, T.C.2    Draper, D.E.3
  • 32
    • 0030020855 scopus 로고    scopus 로고
    • Cooperative interactions of RNA and thiostrepton antibiotic with two domains of ribosomal protein L11
    • Xing, Y., and Draper, D. E. (1996) Cooperative interactions of RNA and thiostrepton antibiotic with two domains of ribosomal protein L11, Biochemistry 35, 1581-1588.
    • (1996) Biochemistry , vol.35 , pp. 1581-1588
    • Xing, Y.1    Draper, D.E.2
  • 33
    • 0029063715 scopus 로고
    • Stabilization of a ribosomal RNA tertiary structure by ribosomal protein L11
    • Xing, Y., and Draper, D. E. (1995) Stabilization of a ribosomal RNA tertiary structure by ribosomal protein L11, J. Mol. Biol. 249, 319-331.
    • (1995) J. Mol. Biol , vol.249 , pp. 319-331
    • Xing, Y.1    Draper, D.E.2
  • 34
    • 0019175261 scopus 로고
    • Functional homology between E. coli ribosomal protein L11 and B. megaterium protein BM-L11
    • Stark, M. J., Cundliffe, E., Dijk, J., and Stoffler, G. (1980) Functional homology between E. coli ribosomal protein L11 and B. megaterium protein BM-L11, Mol. Gen. Genet. 180, 11-15.
    • (1980) Mol. Gen. Genet , vol.180 , pp. 11-15
    • Stark, M.J.1    Cundliffe, E.2    Dijk, J.3    Stoffler, G.4
  • 35
    • 0029894361 scopus 로고    scopus 로고
    • Structure of a U·U pair within a conserved ribosomal RNA hairpin
    • Wang, Y. X., Huang, S., and Draper, D. E. (1996) Structure of a U·U pair within a conserved ribosomal RNA hairpin, Nucleic Acids Res. 24, 2666-2672.
    • (1996) Nucleic Acids Res , vol.24 , pp. 2666-2672
    • Wang, Y.X.1    Huang, S.2    Draper, D.E.3
  • 36
    • 0033553625 scopus 로고    scopus 로고
    • Crystal structure of a conserved ribosomal protein-RNA complex
    • Conn, G. L., Draper, D. E., Lattman, E. E., and Gittis, A. G. (1999) Crystal structure of a conserved ribosomal protein-RNA complex, Science 284, 1171-1174.
    • (1999) Science , vol.284 , pp. 1171-1174
    • Conn, G.L.1    Draper, D.E.2    Lattman, E.E.3    Gittis, A.G.4
  • 37
    • 0033553439 scopus 로고    scopus 로고
    • A detailed view of a ribosomal active site: The structure of the L11-RNA complex
    • Wimberly, B. T., Guymon, R., McCutcheon, J. P., White, S. W., and Ramakrishnan, V. (1999) A detailed view of a ribosomal active site: the structure of the L11-RNA complex, Cell 97, 491-502.
    • (1999) Cell , vol.97 , pp. 491-502
    • Wimberly, B.T.1    Guymon, R.2    McCutcheon, J.P.3    White, S.W.4    Ramakrishnan, V.5
  • 38
    • 0031024655 scopus 로고    scopus 로고
    • The RNA binding domain of ribosomal protein L11 is structurally similar to homeodomains
    • Xing, Y., Guha Thakurta, D., and Draper, D. E. (1997) The RNA binding domain of ribosomal protein L11 is structurally similar to homeodomains, Nat. Struct. Biol. 4, 24-27.
    • (1997) Nat. Struct. Biol , vol.4 , pp. 24-27
    • Xing, Y.1    Guha Thakurta, D.2    Draper, D.E.3
  • 39
    • 0030681341 scopus 로고    scopus 로고
    • The RNA binding domain of ribosomal protein L11: Three-dimensional structure of the RNA-bound form of the protein and its interaction with 23S rRNA
    • Hinck, A. P., Markus, M. A., Huang, S., Grzesiek, S., Kustonovich, I., Draper, D. E., and Torchia, D. A. (1997) The RNA binding domain of ribosomal protein L11: three-dimensional structure of the RNA-bound form of the protein and its interaction with 23S rRNA, J. Mol. Biol. 274, 101-113.
    • (1997) J. Mol. Biol , vol.274 , pp. 101-113
    • Hinck, A.P.1    Markus, M.A.2    Huang, S.3    Grzesiek, S.4    Kustonovich, I.5    Draper, D.E.6    Torchia, D.A.7
  • 40
    • 0031031915 scopus 로고    scopus 로고
    • High resolution solution structure of ribosomal protein L11-C76, a helical protein with a flexible loop that becomes structured upon binding to RNA
    • Markus, M. A., Hinck, A. P., Huang, S., Draper, D. E., and Torchia, D. A. (1997) High resolution solution structure of ribosomal protein L11-C76, a helical protein with a flexible loop that becomes structured upon binding to RNA, Nat. Struct. Biol. 4, 70-77.
    • (1997) Nat. Struct. Biol , vol.4 , pp. 70-77
    • Markus, M.A.1    Hinck, A.P.2    Huang, S.3    Draper, D.E.4    Torchia, D.A.5
  • 41
    • 0034637111 scopus 로고    scopus 로고
    • The complete atomic structure of the large ribosomal subunit at 2.4 angstrom resolution
    • Ban, N., Nissen, P., Hansen, J., Moore, P. B., and Steitz, T. A. (2000) The complete atomic structure of the large ribosomal subunit at 2.4 angstrom resolution, Science 289, 905-920.
    • (2000) Science , vol.289 , pp. 905-920
    • Ban, N.1    Nissen, P.2    Hansen, J.3    Moore, P.B.4    Steitz, T.A.5
  • 45
    • 0026423027 scopus 로고
    • Structural features that give rise to the unusual stability of RNA hairpins containing GNRA loops
    • Heus, H. A., and Pardi, A. (1991) Structural features that give rise to the unusual stability of RNA hairpins containing GNRA loops, Science 253, 191-194.
    • (1991) Science , vol.253 , pp. 191-194
    • Heus, H.A.1    Pardi, A.2
  • 46
    • 0030596092 scopus 로고    scopus 로고
    • A network of heterogeneous hydrogen bonds in GNRA tetraloops
    • Jucker, F. M., Heus, H. A., Yip, P. F., Moors, E. H. M., and Pardi, A. (1996) A network of heterogeneous hydrogen bonds in GNRA tetraloops, J. Mol. Biol. 264, 968-980.
    • (1996) J. Mol. Biol , vol.264 , pp. 968-980
    • Jucker, F.M.1    Heus, H.A.2    Yip, P.F.3    Moors, E.H.M.4    Pardi, A.5
  • 48
    • 0023518718 scopus 로고
    • Automated chemical synthesis of long oligoribonucleotides using 2′-O-silylated ribonucleoside 3′-O-phosphoramidites on a controlled-pore glass support: Synthesis of a 43-nucleotide sequence similar to the 3′-half molecule of an Escherichia coli formylmethionine tRNA
    • Usman, N., Ogilvie, K. K., Jiang, M. Y., and Cedergren, R. J. (1987) Automated chemical synthesis of long oligoribonucleotides using 2′-O-silylated ribonucleoside 3′-O-phosphoramidites on a controlled-pore glass support: synthesis of a 43-nucleotide sequence similar to the 3′-half molecule of an Escherichia coli formylmethionine tRNA, J. Am. Chem. Soc. 109, 7845-7854.
    • (1987) J. Am. Chem. Soc , vol.109 , pp. 7845-7854
    • Usman, N.1    Ogilvie, K.K.2    Jiang, M.Y.3    Cedergren, R.J.4
  • 49
    • 0000019472 scopus 로고
    • Evaluation of the use of the tert-butyldimethylsilyl group for 2′-protection in RNA: Synthesis via the H-phosphonate approach
    • Stawinski, J., Stromberg, R., Thelin, M., and Westman, E. (1988) Evaluation of the use of the tert-butyldimethylsilyl group for 2′-protection in RNA: Synthesis via the H-phosphonate approach, Nucleosides Nucleotides 7, 779-782.
    • (1988) Nucleosides Nucleotides , vol.7 , pp. 779-782
    • Stawinski, J.1    Stromberg, R.2    Thelin, M.3    Westman, E.4
  • 50
    • 33749341539 scopus 로고    scopus 로고
    • The NMR structure of an internal loop from 23S ribosomal RNA differs from its structure in crystals of 50S ribosomal subunits
    • Shankar, N., Kennedy, S. D., Chen, G., Krugh, T. R., and Turner, D. H. (2006) The NMR structure of an internal loop from 23S ribosomal RNA differs from its structure in crystals of 50S ribosomal subunits, Biochemistry 45, 11776-11789.
    • (2006) Biochemistry , vol.45 , pp. 11776-11789
    • Shankar, N.1    Kennedy, S.D.2    Chen, G.3    Krugh, T.R.4    Turner, D.H.5
  • 51
    • 0037551646 scopus 로고    scopus 로고
    • Alignment of biological macromolecules in novel nonionic liquid crystalline media for NMR experiments
    • Ruckert, M., and Otting, G. (2000) Alignment of biological macromolecules in novel nonionic liquid crystalline media for NMR experiments, J. Am. Chem. Soc. 122, 7793-7797.
    • (2000) J. Am. Chem. Soc , vol.122 , pp. 7793-7797
    • Ruckert, M.1    Otting, G.2
  • 52
    • 34249765651 scopus 로고
    • NMR View - A computer-program for the visualization and analysis of NMR data
    • Johnson, B. A., and Blevins, R. A. (1994) NMR View - A computer-program for the visualization and analysis of NMR data, J. Biomol. NMR 4, 603-614.
    • (1994) J. Biomol. NMR , vol.4 , pp. 603-614
    • Johnson, B.A.1    Blevins, R.A.2
  • 53
    • 0004757060 scopus 로고    scopus 로고
    • NMR Assignment and Integration Software
    • Goddard, T. D., and Kneller, D. G. (2004) Sparky, NMR Assignment and Integration Software. http://www.cgl.ucsf.edu/home/sparky
    • (2004) Sparky
    • Goddard, T.D.1    Kneller, D.G.2
  • 55
    • 0035743157 scopus 로고    scopus 로고
    • A maximum likelihood method for determining D(a)(PQ) and R for sets of dipolar coupling data
    • Warren, J. J., and Moore, P. B. (2001) A maximum likelihood method for determining D(a)(PQ) and R for sets of dipolar coupling data, J. Magn. Reson. 149, 271-275.
    • (2001) J. Magn. Reson , vol.149 , pp. 271-275
    • Warren, J.J.1    Moore, P.B.2
  • 56
    • 0344628782 scopus 로고    scopus 로고
    • Structure of HCV IRES domain II determined by NMR
    • Lukavsky, P. J., Kim, I., Otto, G. A., and Puglisi, J. D. (2003) Structure of HCV IRES domain II determined by NMR, Nat. Struct. Biol. 10, 1033-1038.
    • (2003) Nat. Struct. Biol , vol.10 , pp. 1033-1038
    • Lukavsky, P.J.1    Kim, I.2    Otto, G.A.3    Puglisi, J.D.4
  • 57
    • 2942653357 scopus 로고    scopus 로고
    • Prediction of charge-induced molecular alignment of biomolecules dissolved in dilute liquid-crystalline phases
    • Zweckstetter, M., Hummer, G., and Bax, A. (2004) Prediction of charge-induced molecular alignment of biomolecules dissolved in dilute liquid-crystalline phases, Biophys. J. 86, 3444-3460.
    • (2004) Biophys. J , vol.86 , pp. 3444-3460
    • Zweckstetter, M.1    Hummer, G.2    Bax, A.3
  • 58
    • 0034685436 scopus 로고    scopus 로고
    • Prediction of sterically induced alignment in a dilute liquid crystalline phase: Aid to protein structure determination by NMR
    • Zweckstetter, M., and Bax, A. (2000) Prediction of sterically induced alignment in a dilute liquid crystalline phase: Aid to protein structure determination by NMR, J. Am. Chem. Soc. 122, 3791-3792.
    • (2000) J. Am. Chem. Soc , vol.122 , pp. 3791-3792
    • Zweckstetter, M.1    Bax, A.2
  • 60
    • 0001606582 scopus 로고
    • Optical Properties of Nucleic Acids, Absorption and Circular Dichroism Spectra
    • Fasman, G. D. Ed, 3rd ed, pp, CRC Press, Cleveland, OH
    • Borer, P. N. (1975) Optical Properties of Nucleic Acids, Absorption and Circular Dichroism Spectra, in Handbook of Biochemistry and Molecular Biology: Nucleic Acids (Fasman, G. D. Ed.) 3rd ed., pp 589-595, CRC Press, Cleveland, OH.
    • (1975) Handbook of Biochemistry and Molecular Biology: Nucleic Acids , pp. 589-595
    • Borer, P.N.1
  • 61
    • 0000186216 scopus 로고
    • Use of Tables in Calculation of Absorption, Optical Rotatory Dispersion and Circular Dichroism of Polyribonucleotides
    • Fasman, G. D. Ed, 3rd ed, pp, CRC Press, Cleveland, OH
    • Richards, E. G. (1975) Use of Tables in Calculation of Absorption, Optical Rotatory Dispersion and Circular Dichroism of Polyribonucleotides, in Handbook of Biochemistry and Molecular Biology: Nucleic Acids (Fasman, G. D. Ed.) 3rd ed., pp 596-603, CRC Press, Cleveland, OH.
    • (1975) Handbook of Biochemistry and Molecular Biology: Nucleic Acids , pp. 596-603
    • Richards, E.G.1
  • 62
    • 0026539417 scopus 로고
    • A compilation of large subunit (23S- and 23S-like) ribosomal RNA structures
    • Gutell, R. R., Schnare, M. N., and Gray, M. W. (1992) A compilation of large subunit (23S- and 23S-like) ribosomal RNA structures, Nucleic Acids Res. 20, 2095-2109.
    • (1992) Nucleic Acids Res , vol.20 , pp. 2095-2109
    • Gutell, R.R.1    Schnare, M.N.2    Gray, M.W.3
  • 63
    • 0027225783 scopus 로고
    • A compilation of large subunit (23S- and 23S-like) ribosomal RNA structures: 1993
    • Gutell, R. R., Gray, M. W., and Schnare, M. N. (1993) A compilation of large subunit (23S- and 23S-like) ribosomal RNA structures: 1993, Nucleic Acids Res. 21, 3055-3074.
    • (1993) Nucleic Acids Res , vol.21 , pp. 3055-3074
    • Gutell, R.R.1    Gray, M.W.2    Schnare, M.N.3
  • 64
    • 12044251259 scopus 로고
    • Solvent suppression with symmetrically-shifted pulses
    • Smallcombe, S. H. (1993) Solvent suppression with symmetrically-shifted pulses, J. Am. Chem. Soc. 115, 4776-4785.
    • (1993) J. Am. Chem. Soc , vol.115 , pp. 4776-4785
    • Smallcombe, S.H.1
  • 66
    • 0026348081 scopus 로고
    • RNA structure and NMR spectroscopy
    • Varani, G., and Tinoco, I. (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, I.2
  • 67
    • 0034786589 scopus 로고    scopus 로고
    • Prediction of proton chemical shifts in RNA. Their use in structure refinement and validation
    • Cromsigt, J. A., Hilbers, C. W., and Wijmenga, S. S. (2001) Prediction of proton chemical shifts in RNA. Their use in structure refinement and validation, J. Biomol. NMR 21, 11-29.
    • (2001) J. Biomol. NMR , vol.21 , pp. 11-29
    • Cromsigt, J.A.1    Hilbers, C.W.2    Wijmenga, S.S.3
  • 68
    • 12044257509 scopus 로고
    • Functional-group substitutions as probes of hydrogen-bonding between GA mismatches in RNA internal loops
    • SantaLucia, J., Kierzek, R., and Turner, D. H. (1991) Functional-group substitutions as probes of hydrogen-bonding between GA mismatches in RNA internal loops, J. Am. Chem. Soc. 113, 4313-4322.
    • (1991) J. Am. Chem. Soc , vol.113 , pp. 4313-4322
    • SantaLucia, J.1    Kierzek, R.2    Turner, D.H.3
  • 69
    • 0026562625 scopus 로고
    • Context dependence of hydrogen-bond free-energy revealed by substitutions in an RNA hairpin
    • SantaLucia, J., Kierzek, R., and Turner, D. H. (1992) Context dependence of hydrogen-bond free-energy revealed by substitutions in an RNA hairpin, Science 256, 217-219.
    • (1992) Science , vol.256 , pp. 217-219
    • SantaLucia, J.1    Kierzek, R.2    Turner, D.H.3
  • 71
    • 0027146665 scopus 로고
    • 2 in solution from NMR and restrained molecular dynamics
    • 2 in solution from NMR and restrained molecular dynamics, Biochemistry 32, 12612-12623.
    • (1993) Biochemistry , vol.32 , pp. 12612-12623
    • SantaLucia Jr., J.1    Turner, D.H.2
  • 72
    • 0029744135 scopus 로고    scopus 로고
    • 2 by two-dimensional NMR and the iterative relaxation matrix approach
    • 2 by two-dimensional NMR and the iterative relaxation matrix approach, Biochemistry 35, 9677-9689.
    • (1996) Biochemistry , vol.35 , pp. 9677-9689
    • Wu, M.1    Turner, D.H.2
  • 73
    • 0027956537 scopus 로고
    • A major family of motifs involving G·A mismatches in ribosomal RNA
    • Gautheret, D. F., Konings, D., and Gutell, R. R. (1994) A major family of motifs involving G·A mismatches in ribosomal RNA, J. Mol. Biol. 242, 1-8.
    • (1994) J. Mol. Biol , vol.242 , pp. 1-8
    • Gautheret, D.F.1    Konings, D.2    Gutell, R.R.3
  • 74
    • 0035957084 scopus 로고    scopus 로고
    • Thermodynamics of RNA internal loops with a guanosine-guanosine pair adjacent to another noncanonical pair
    • Burkard, M. E., Xia, T., and Turner, D. H. (2001) Thermodynamics of RNA internal loops with a guanosine-guanosine pair adjacent to another noncanonical pair, Biochemistry 40, 2478-2483.
    • (2001) Biochemistry , vol.40 , pp. 2478-2483
    • Burkard, M.E.1    Xia, T.2    Turner, D.H.3
  • 75
    • 0032552882 scopus 로고    scopus 로고
    • Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs
    • Xia, T., SantaLucia, J., Jr., Burkard, M. E., Kierzek, R., Schroeder, S. J., Jiao, X., Cox, C., and Turner, D. H. (1998) Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs, Biochemistry 37, 14719-14735.
    • (1998) Biochemistry , vol.37 , pp. 14719-14735
    • Xia, T.1    SantaLucia Jr., J.2    Burkard, M.E.3    Kierzek, R.4    Schroeder, S.J.5    Jiao, X.6    Cox, C.7    Turner, D.H.8
  • 76
    • 0034622514 scopus 로고    scopus 로고
    • Factors affecting the thermodynamic stability of small asymmetric internal loops in RNA
    • Schroeder, S. J., and Turner, D. H. (2000) Factors affecting the thermodynamic stability of small asymmetric internal loops in RNA, Biochemistry 39, 9257-9274.
    • (2000) Biochemistry , vol.39 , pp. 9257-9274
    • Schroeder, S.J.1    Turner, D.H.2
  • 77
    • 0000731487 scopus 로고    scopus 로고
    • The energetics of small internal loops in RNA
    • Schroeder, S. J., Burkard, M. E., and Turner, D. H. (1999) The energetics of small internal loops in RNA, Biopolymers 52, 157-167.
    • (1999) Biopolymers , vol.52 , pp. 157-167
    • Schroeder, S.J.1    Burkard, M.E.2    Turner, D.H.3
  • 78
    • 0001613489 scopus 로고
    • Effects of 3′ dangling end stacking on the stability of GGCC and CCGG double helixes
    • Freier, S. M., Burger, B. J., Alkema, D., Neilson, T., and Turner, D. H. (1983) Effects of 3′ dangling end stacking on the stability of GGCC and CCGG double helixes, Biochemistry 22, 6198-6206.
    • (1983) Biochemistry , vol.22 , pp. 6198-6206
    • Freier, S.M.1    Burger, B.J.2    Alkema, D.3    Neilson, T.4    Turner, D.H.5
  • 79
    • 0033618268 scopus 로고    scopus 로고
    • Thermodynamics of unpaired terminal nucleotides on short RNA helixes correlates with stacking at helix termini in larger RNAs
    • Burkard, M. E., Kierzek, R., and Turner, D. H. (1999) Thermodynamics of unpaired terminal nucleotides on short RNA helixes correlates with stacking at helix termini in larger RNAs, J. Mol. Biol. 290, 967-982.
    • (1999) J. Mol. Biol , vol.290 , pp. 967-982
    • Burkard, M.E.1    Kierzek, R.2    Turner, D.H.3
  • 81
    • 0029048157 scopus 로고
    • On the role of rRNA tertiary structure in recognition of ribosomal protein L11 and thiostrepton
    • Lu, M., and Draper, D. E. (1995) On the role of rRNA tertiary structure in recognition of ribosomal protein L11 and thiostrepton, Nucleic Acids Res. 23, 3426-3433.
    • (1995) Nucleic Acids Res , vol.23 , pp. 3426-3433
    • Lu, M.1    Draper, D.E.2
  • 82
    • 0028102703 scopus 로고
    • Bases defining an ammonium and magnesium ion-dependent tertiary structure within the large subunit ribosomal RNA
    • Lu, M., and Draper, D. E. (1994) Bases defining an ammonium and magnesium ion-dependent tertiary structure within the large subunit ribosomal RNA, J. Mol. Biol. 244, 572-585.
    • (1994) J. Mol. Biol , vol.244 , pp. 572-585
    • Lu, M.1    Draper, D.E.2


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