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Volumn 49, Issue 40, 2010, Pages 8669-8679

Positional and neighboring base pair effects on the thermodynamic stability of RNA single mismatches

Author keywords

[No Author keywords available]

Indexed keywords

BASE PAIRS; GENERAL TRENDS; NATURALLY OCCURRING; NEAREST NEIGHBORS; PREDICTION ALGORITHMS; RNA DUPLEXES; RNA STRUCTURES; SECONDARY STRUCTURES; SMALL RNA; THERMODYNAMIC PARAMETER; THERMODYNAMIC STUDIES;

EID: 77957665011     PISSN: 00062960     EISSN: 15204995     Source Type: Journal    
DOI: 10.1021/bi100146z     Document Type: Article
Times cited : (19)

References (67)
  • 1
    • 0025900996 scopus 로고
    • Thermodynamic study of internal loops in oligoribonucleotides: Symmetric loops are more stable than asymmetric loops
    • Peritz, A. E., Kierzek, R., Sugimoto, N., and Turner, D. H. (1991) Thermodynamic study of internal loops in oligoribonucleotides: Symmetric loops are more stable than asymmetric loops Biochemistry 30, 6428-6436
    • (1991) Biochemistry , vol.30 , pp. 6428-6436
    • Peritz, A.E.1    Kierzek, R.2    Sugimoto, N.3    Turner, D.H.4
  • 2
    • 0037995439 scopus 로고    scopus 로고
    • Mutational analysis of an RNA internal loop as a reactivity epitope for Escherichia coli ribonuclease III substrates
    • Calin-Jageman, I. and Nicholson, A. W. (2003) Mutational analysis of an RNA internal loop as a reactivity epitope for Escherichia coli ribonuclease III substrates Biochemistry 42, 5025-5034
    • (2003) Biochemistry , vol.42 , pp. 5025-5034
    • Calin-Jageman, I.1    Nicholson, A.W.2
  • 3
    • 0019821773 scopus 로고
    • Processing of mRNA by ribonuclease III regulates expression of gene 1.2 of bacteriophage T7
    • Saito, H. and Richardson, C. C. (1981) Processing of mRNA by ribonuclease III regulates expression of gene 1.2 of bacteriophage T7 Cell 27, 533-542
    • (1981) Cell , vol.27 , pp. 533-542
    • Saito, H.1    Richardson, C.C.2
  • 4
    • 28044455435 scopus 로고    scopus 로고
    • MicroPrimer: The biogenesis and function of microRNA
    • Du, T. and Zamore, P. D. (2005) MicroPrimer: The biogenesis and function of microRNA Development 132, 4645-4652
    • (2005) Development , vol.132 , pp. 4645-4652
    • Du, T.1    Zamore, P.D.2
  • 5
    • 0035845528 scopus 로고    scopus 로고
    • Structural features of an influenza virus promoter and their implications for viral RNA synthesis
    • Bae, S. H., Cheong, H. K., Lee, J. H., Cheong, C., Kainosho, M., and Choi, B. S. (2001) Structural features of an influenza virus promoter and their implications for viral RNA synthesis Proc. Natl. Acad. Sci. U.S.A. 98, 10602-10607
    • (2001) Proc. Natl. Acad. Sci. U.S.A. , vol.98 , pp. 10602-10607
    • Bae, S.H.1    Cheong, H.K.2    Lee, J.H.3    Cheong, C.4    Kainosho, M.5    Choi, B.S.6
  • 6
    • 0037143493 scopus 로고    scopus 로고
    • Multiple secondary structure rearrangements during HIV-1 RNA dimerization
    • Huthoff, H. and Berkhout, B. (2002) Multiple secondary structure rearrangements during HIV-1 RNA dimerization Biochemistry 41, 10439-10445
    • (2002) Biochemistry , vol.41 , pp. 10439-10445
    • Huthoff, H.1    Berkhout, B.2
  • 8
    • 0039178080 scopus 로고    scopus 로고
    • Selection of viral RNA-derived tRNA-like structures with improved valylation activities
    • Wientges, J., Putz, J., Giege, R., Florentz, C., and Schwienhorst, A. (2000) Selection of viral RNA-derived tRNA-like structures with improved valylation activities Biochemistry 39, 6207-6218
    • (2000) Biochemistry , vol.39 , pp. 6207-6218
    • Wientges, J.1    Putz, J.2    Giege, R.3    Florentz, C.4    Schwienhorst, A.5
  • 9
    • 2442705213 scopus 로고    scopus 로고
    • Conserved RNA secondary structures in Flaviviridae genomes
    • DOI 10.1099/vir.0.19462-0
    • Thunder, C., Witwer, C., Hofacker, I. L., and Stadler, P. F. (2004) Conserved RNA secondary structures in Flaviviridae genomes J. Gen. Virol. 85, 1113-1124 (Pubitemid 38659775)
    • (2004) Journal of General Virology , vol.85 , Issue.5 , pp. 1113-1124
    • Thurner, C.1    Witwer, C.2    Hofacker, I.L.3    Stadler, P.F.4
  • 10
    • 0029994685 scopus 로고    scopus 로고
    • Evidence for the existence of a pseudoknot structure at the 3′ terminus of the Flavivirus genomic RNA
    • Shi, P.-Y., Brinton, M. A., Veal, J. M., Zhong, Y. Y., and Wilson, W. D. (1996) Evidence for the existence of a pseudoknot structure at the 3′ terminus of the Flavivirus genomic RNA Biochemistry 35, 4222-4230
    • (1996) Biochemistry , vol.35 , pp. 4222-4230
    • Shi, P.-Y.1    Brinton, M.A.2    Veal, J.M.3    Zhong, Y.Y.4    Wilson, W.D.5
  • 11
    • 8144228406 scopus 로고    scopus 로고
    • Trinucleotide repeats and neurodegenerative disease
    • Everett, C. M. and Wood, N. W. (2004) Trinucleotide repeats and neurodegenerative disease Brain 127, 2385-2405
    • (2004) Brain , vol.127 , pp. 2385-2405
    • Everett, C.M.1    Wood, N.W.2
  • 12
    • 2342461060 scopus 로고    scopus 로고
    • Myotonic dystrophy: RNA pathogenesis comes into focus
    • Ranum, L. P. W. and Day, J. W. (2004) Myotonic dystrophy: RNA pathogenesis comes into focus Am. J. Hum. Genet. 74, 793-804
    • (2004) Am. J. Hum. Genet. , vol.74 , pp. 793-804
    • Ranum, L.P.W.1    Day, J.W.2
  • 13
    • 12444292681 scopus 로고    scopus 로고
    • Specific recognition of napthyridine-based ligands toward guanine-containing bulges in RNA duplexes and RNA-DNA heteroduplexes
    • Tok, J. B.-H., Bi, L., and Saenz, M. (2005) Specific recognition of napthyridine-based ligands toward guanine-containing bulges in RNA duplexes and RNA-DNA heteroduplexes Bioorg. Med. Chem. Lett. 15, 827-831
    • (2005) Bioorg. Med. Chem. Lett. , vol.15 , pp. 827-831
    • Tok, J.B.-H.1    Bi, L.2    Saenz, M.3
  • 15
    • 28844501658 scopus 로고    scopus 로고
    • Analysis of the contribution of individual subsitituents in 4,6-aminoglycoside-ribosome interactions
    • Hobbie, S. N., Pfister, P., Brüll, C., Westhof, E., and Bröttger, E. C. (2005) Analysis of the contribution of individual subsitituents in 4,6-aminoglycoside-ribosome interactions Antimicrob. Agents Chemother. 49, 5112-5118
    • (2005) Antimicrob. Agents Chemother. , vol.49 , pp. 5112-5118
    • Hobbie, S.N.1    Pfister, P.2    Brüll, C.3    Westhof, E.4    Bröttger, E.C.5
  • 16
    • 0037470560 scopus 로고    scopus 로고
    • Crystal structure of Geneticin bound to a bacterial 16S ribosomal RNA A site oligonucleotide
    • Vicens, Q. and Westhof, E. (2003) Crystal structure of Geneticin bound to a bacterial 16S ribosomal RNA A site oligonucleotide J. Mol. Biol. 326, 1175-1188
    • (2003) J. Mol. Biol. , vol.326 , pp. 1175-1188
    • Vicens, Q.1    Westhof, E.2
  • 17
    • 1542638566 scopus 로고    scopus 로고
    • In vitro selection of RNA aptamers that bind to colicin E3 and structurally resemble the decoding site of 16S ribosomal RNA
    • Hirao, I., Harada, Y., Nojima, T., Osawa, Y., Masaki, H., and Yokoyama, S. (2004) In vitro selection of RNA aptamers that bind to colicin E3 and structurally resemble the decoding site of 16S ribosomal RNA Biochemistry 43, 3214-3221
    • (2004) Biochemistry , vol.43 , pp. 3214-3221
    • Hirao, I.1    Harada, Y.2    Nojima, T.3    Osawa, Y.4    Masaki, H.5    Yokoyama, S.6
  • 18
    • 33748164764 scopus 로고    scopus 로고
    • RNA aptamers selectively modulate protein recruitment to the cytoplasmic domain of β-secretase BACE1 in vitro
    • Rentmeister, A., Bill, A., Wahle, T., Walter, J., and Famulok, M. (2006) RNA aptamers selectively modulate protein recruitment to the cytoplasmic domain of β-secretase BACE1 in vitro RNA 12, 1650-1660
    • (2006) RNA , vol.12 , pp. 1650-1660
    • Rentmeister, A.1    Bill, A.2    Wahle, T.3    Walter, J.4    Famulok, M.5
  • 19
    • 1642491747 scopus 로고    scopus 로고
    • Enhancement of RNAi activity by improved siRNA duplexes
    • Hohjoh, H. (2004) Enhancement of RNAi activity by improved siRNA duplexes FEBS Lett. 557, 193-198
    • (2004) FEBS Lett. , vol.557 , pp. 193-198
    • Hohjoh, H.1
  • 20
    • 17444412299 scopus 로고    scopus 로고
    • Local RNA target structure influences siRNA efficacy: Systematic analysis of intentionally designed binding regions
    • Schubert, S., Grünweller, A., Erdmann, V. A., and Kurreck, J. (2005) Local RNA target structure influences siRNA efficacy: Systematic analysis of intentionally designed binding regions J. Mol. Biol. 348, 883-893
    • (2005) J. Mol. Biol. , vol.348 , pp. 883-893
    • Schubert, S.1    Grünweller, A.2    Erdmann, V.A.3    Kurreck, J.4
  • 21
    • 34547843654 scopus 로고    scopus 로고
    • A systematic analysis of the effect of target RNA structure on RNA interference
    • Westerhout, E. M. and Berkhout, B. (2007) A systematic analysis of the effect of target RNA structure on RNA interference Nucleic Acids Res. 35, 4322-4330
    • (2007) Nucleic Acids Res. , vol.35 , pp. 4322-4330
    • Westerhout, E.M.1    Berkhout, B.2
  • 22
    • 14644421585 scopus 로고    scopus 로고
    • Influence of assembly of siRNA elements into RNA-induced silencing complex by fork-siRNA duplex carrying nucleotide mismatches at the 3′- or 5′-end of the sense-stranded siRNA element
    • Ohnishi, Y., Tokunaga, K., and Hohjoh, H. (2005) Influence of assembly of siRNA elements into RNA-induced silencing complex by fork-siRNA duplex carrying nucleotide mismatches at the 3′- or 5′-end of the sense-stranded siRNA element Biochem. Biophys. Res. Commun. 329, 516-521
    • (2005) Biochem. Biophys. Res. Commun. , vol.329 , pp. 516-521
    • Ohnishi, Y.1    Tokunaga, K.2    Hohjoh, H.3
  • 23
    • 0034673638 scopus 로고    scopus 로고
    • An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells
    • Hammond, S. M., Bernstein, E., Beach, D., and Hannon, G. J. (2000) An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells Nature 404, 293-296
    • (2000) Nature , vol.404 , pp. 293-296
    • Hammond, S.M.1    Bernstein, E.2    Beach, D.3    Hannon, G.J.4
  • 24
    • 0035905766 scopus 로고    scopus 로고
    • Role for a bidentate ribonuclease in the initiation step of RNA interference
    • Bernstein, E., Caudy, A. A., Hammond, S. M., and Hannon, G. J. (2001) Role for a bidentate ribonuclease in the initiation step of RNA interference Nature 409, 363-366
    • (2001) Nature , vol.409 , pp. 363-366
    • Bernstein, E.1    Caudy, A.A.2    Hammond, S.M.3    Hannon, G.J.4
  • 25
    • 0037134020 scopus 로고    scopus 로고
    • A system for stable expression of short interfering RNas in mammalian cells
    • Brummelkamp, T. R., Bernards, R., and Agami, R. (2002) A system for stable expression of short interfering RNas in mammalian cells Science 296, 550-553
    • (2002) Science , vol.296 , pp. 550-553
    • Brummelkamp, T.R.1    Bernards, R.2    Agami, R.3
  • 26
    • 0035942736 scopus 로고    scopus 로고
    • Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells
    • Elbashir, S. M., Harborth, J., Lendeckel, W., Yalcin, A., Weber, K., and Tuschl, T. (2001) Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells Nature 411, 494-498
    • (2001) Nature , vol.411 , pp. 494-498
    • Elbashir, S.M.1    Harborth, J.2    Lendeckel, W.3    Yalcin, A.4    Weber, K.5    Tuschl, T.6
  • 27
    • 0036251639 scopus 로고    scopus 로고
    • Effective expression of small interfering RNA in human cells
    • Paul, C. P., Good, P. D., Winer, I., and Engelke, D. R. (2002) Effective expression of small interfering RNA in human cells Nat. Biotechnol. 20, 505-508
    • (2002) Nat. Biotechnol. , vol.20 , pp. 505-508
    • Paul, C.P.1    Good, P.D.2    Winer, I.3    Engelke, D.R.4
  • 28
    • 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
  • 29
    • 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. C., 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.C.3    Schroeder, S.J.4    Zuker, M.5    Turner, D.H.6
  • 30
    • 33750214512 scopus 로고    scopus 로고
    • A set of nearest neighbor parameters for predicting the enthalpy change of RNA secondary structure formation
    • Lu, Z. J., Turner, D. H., and Mathews, D. H. (2006) A set of nearest neighbor parameters for predicting the enthalpy change of RNA secondary structure formation Nucleic Acids Res. 34, 4912-4924
    • (2006) Nucleic Acids Res. , vol.34 , pp. 4912-4924
    • Lu, Z.J.1    Turner, D.H.2    Mathews, D.H.3
  • 31
    • 0042121256 scopus 로고    scopus 로고
    • Mfold web server for nucleic acid folding and hybridization prediction
    • Zuker, M. (2003) Mfold web server for nucleic acid folding and hybridization prediction Nucleic Acids Res. 31, 3406-3415
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3406-3415
    • Zuker, M.1
  • 32
    • 0024477261 scopus 로고
    • On finding all suboptimal foldings of an RNA molecule
    • Zuker, M. (1989) On finding all suboptimal foldings of an RNA molecule Science 244, 48-52
    • (1989) Science , vol.244 , pp. 48-52
    • Zuker, M.1
  • 33
    • 0043123153 scopus 로고    scopus 로고
    • Vienna RNA secondary structure server
    • Hofacker, I. L. (2003) Vienna RNA secondary structure server Nucleic Acids Res. 31, 3429-3431
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3429-3431
    • Hofacker, I.L.1
  • 34
    • 70349131635 scopus 로고    scopus 로고
    • Improved RNA secondary structure prediction by maximizing expected pair accuracy
    • Lu, Z. J., Gloor, J. W., and Mathews, D. H. (2009) Improved RNA secondary structure prediction by maximizing expected pair accuracy RNA 15, 1805-1813
    • (2009) RNA , vol.15 , pp. 1805-1813
    • Lu, Z.J.1    Gloor, J.W.2    Mathews, D.H.3
  • 35
    • 36248936612 scopus 로고    scopus 로고
    • Thermodynamic characterization of single mismatches found in naturally occurring RNA
    • Davis, A. R. and Znosko, B. M. (2007) Thermodynamic characterization of single mismatches found in naturally occurring RNA Biochemistry 46, 13425-13436
    • (2007) Biochemistry , vol.46 , pp. 13425-13436
    • Davis, A.R.1    Znosko, B.M.2
  • 36
    • 52249085385 scopus 로고    scopus 로고
    • Thermodynamic characterization of naturally occurring RNA single mismatches with G-U nearest neighbors
    • Davis, A. R. and Znosko, B. M. (2008) Thermodynamic characterization of naturally occurring RNA single mismatches with G-U nearest neighbors Biochemistry 47, 10178-10187
    • (2008) Biochemistry , vol.47 , pp. 10178-10187
    • Davis, A.R.1    Znosko, B.M.2
  • 37
    • 0033607261 scopus 로고    scopus 로고
    • Thermodynamics of single mismatches in RNA duplexes
    • Kierzek, R., Burkard, M. E., and Turner, D. H. (1999) Thermodynamics of single mismatches in RNA duplexes Biochemistry 38, 14214-14223
    • (1999) Biochemistry , vol.38 , pp. 14214-14223
    • Kierzek, R.1    Burkard, M.E.2    Turner, D.H.3
  • 38
    • 37349072140 scopus 로고    scopus 로고
    • Non-nearest-neighbor dependence of the stability for RNA bulge loops based on the complete set of group i single-nucleotide bulge loops
    • Blose, J. M., Manni, M. L., Klapec, K. A., Stranger-Jones, Y., Zyra, A. C., Sim, V., Griffith, C. A., Long, J. D., and Serra, M. J. (2007) Non-nearest-neighbor dependence of the stability for RNA bulge loops based on the complete set of group I single-nucleotide bulge loops Biochemistry 46, 15123-15135
    • (2007) Biochemistry , vol.46 , pp. 15123-15135
    • Blose, J.M.1    Manni, M.L.2    Klapec, K.A.3    Stranger-Jones, Y.4    Zyra, A.C.5    Sim, V.6    Griffith, C.A.7    Long, J.D.8    Serra, M.J.9
  • 39
    • 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
  • 40
    • 33846057040 scopus 로고    scopus 로고
    • Folding cooperativity in RNA and DNA is dependent on position in the helix
    • Siegfried, N. A., Metzger, S. L., and Bevilacqua, P. C. (2007) Folding cooperativity in RNA and DNA is dependent on position in the helix Biochemistry 46, 172-181
    • (2007) Biochemistry , vol.46 , pp. 172-181
    • Siegfried, N.A.1    Metzger, S.L.2    Bevilacqua, P.C.3
  • 41
    • 0025186882 scopus 로고
    • Thermodynamic and spectroscopic study of bulge loops in oligoribonucleotides
    • Longfellow, C. E., Kierzek, R., and Turner, D. H. (1990) Thermodynamic and spectroscopic study of bulge loops in oligoribonucleotides Biochemistry 29, 278-285
    • (1990) Biochemistry , vol.29 , pp. 278-285
    • Longfellow, C.E.1    Kierzek, R.2    Turner, D.H.3
  • 42
    • 0037134783 scopus 로고    scopus 로고
    • The thermal stability of RNA duplexes containing modified base pairs at internal and terminal positions of the oligoribonucleotides
    • Ziomek, K., Kierzek, E., Biala, E., and Kierzek, R. (2002) The thermal stability of RNA duplexes containing modified base pairs at internal and terminal positions of the oligoribonucleotides Biophys. Chem. 97, 233-241
    • (2002) Biophys. Chem. , vol.97 , pp. 233-241
    • Ziomek, K.1    Kierzek, E.2    Biala, E.3    Kierzek, R.4
  • 43
    • 37249073320 scopus 로고    scopus 로고
    • Thermodynamic characterization of RNA duplexes containing naturally occurring 1 × 2 nucleotide internal loops
    • Badhwar, J., Karri, S., Cass, C. K., Wunderlich, E. L., and Znosko, B. M. (2007) Thermodynamic characterization of RNA duplexes containing naturally occurring 1 × 2 nucleotide internal loops Biochemistry 46, 14715-14724
    • (2007) Biochemistry , vol.46 , pp. 14715-14724
    • Badhwar, J.1    Karri, S.2    Cass, C.K.3    Wunderlich, E.L.4    Znosko, B.M.5
  • 44
    • 75149139054 scopus 로고    scopus 로고
    • Thermodynamic characterization of naturally occurring RNA tetraloops
    • Sheehy, J. P., Davis, A. R., and Znosko, B. M. (2010) Thermodynamic characterization of naturally occurring RNA tetraloops RNA 16, 417-429
    • (2010) RNA , vol.16 , pp. 417-429
    • Sheehy, J.P.1    Davis, A.R.2    Znosko, B.M.3
  • 45
    • 34247526026 scopus 로고    scopus 로고
    • Nearest neighbor parameters for inosine-uridine pairs in RNA duplexes
    • Wright, D. J., Rice, J. L., Yanker, D. M., and Znosko, B. M. (2007) Nearest neighbor parameters for inosine-uridine pairs in RNA duplexes Biochemistry 46, 4625-4634
    • (2007) Biochemistry , vol.46 , pp. 4625-4634
    • Wright, D.J.1    Rice, J.L.2    Yanker, D.M.3    Znosko, B.M.4
  • 46
    • 33845555707 scopus 로고
    • Exchangeable protons without base line distortion using a new strong pulse sequence
    • Plateau, P. and Gueron, M. (1982) Exchangeable protons without base line distortion using a new strong pulse sequence J. Am. Chem. Soc. 104, 7310-7311
    • (1982) J. Am. Chem. Soc. , vol.104 , pp. 7310-7311
    • Plateau, P.1    Gueron, M.2
  • 47
    • 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
  • 48
    • 0025082690 scopus 로고
    • Effects of GA mismatches on the structure and thermodynamics of RNA internal loops
    • SantaLucia, J., Jr., Kierzek, R., and Turner, D. H. (1990) Effects of GA mismatches on the structure and thermodynamics of RNA internal loops Biochemistry 29, 8813-8819
    • (1990) Biochemistry , vol.29 , pp. 8813-8819
    • Santalucia, Jr.J.1    Kierzek, R.2    Turner, D.H.3
  • 49
    • 0023406843 scopus 로고
    • Calculating thermodynamic data for transitions of any molecularity from equilibrium melting curves
    • Marky, L. A. and Breslauer, K. J. (1987) Calculating thermodynamic data for transitions of any molecularity from equilibrium melting curves Biopolymers 26, 1601-1620
    • (1987) Biopolymers , vol.26 , pp. 1601-1620
    • Marky, L.A.1    Breslauer, K.J.2
  • 51
    • 0030815643 scopus 로고    scopus 로고
    • Thermodynamics of nonsymmetric tandem mismatches adjacent to G-C base pairs in RNA
    • Xia, T. B., 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.B.1    McDowell, J.A.2    Turner, D.H.3
  • 52
    • 0031462334 scopus 로고    scopus 로고
    • Measuring the thermodynamics of RNA secondary structure formation
    • SantaLucia, J., Jr. and Turner, D. H. (1997) Measuring the thermodynamics of RNA secondary structure formation Biopolymers 44, 309-319
    • (1997) Biopolymers , vol.44 , pp. 309-319
    • Santalucia, Jr.J.1    Turner, D.H.2
  • 54
    • 33645263708 scopus 로고    scopus 로고
    • Assessing the odd secondary structural properties of nuclear small subunit ribosomal RNA sequences (18S) of the twisted-wing parasites (insecta: Strepsiptera)
    • Gillespie, J. J., McKenna, C. H., Yoder, M. J., Gutell, R. R., Johnston, J. S., Kathirithamby, J., and Cognato, A. I. (2005) Assessing the odd secondary structural properties of nuclear small subunit ribosomal RNA sequences (18S) of the twisted-wing parasites (insecta: strepsiptera) Insect Mol. Biol. 14, 625-643
    • (2005) Insect Mol. Biol. , vol.14 , pp. 625-643
    • Gillespie, J.J.1    McKenna, C.H.2    Yoder, M.J.3    Gutell, R.R.4    Johnston, J.S.5    Kathirithamby, J.6    Cognato, A.I.7
  • 55
    • 33750442556 scopus 로고    scopus 로고
    • Characteristics of the nuclear (18S, 5.8S, 28S and 5S) and mitochondrial (12S and 16S) rRNA genes of Apis mellifera (Insecta: Hymenoptera): Structure, organization, and retrotransposable elements
    • Gillespie, J. J., Johnston, J. S., Cannone, J. J., and Gutell, R. R. (2006) Characteristics of the nuclear (18S, 5.8S, 28S and 5S) and mitochondrial (12S and 16S) rRNA genes of Apis mellifera (Insecta: hymenoptera): Structure, organization, and retrotransposable elements Insect Mol. Biol. 15, 657-686
    • (2006) Insect Mol. Biol. , vol.15 , pp. 657-686
    • Gillespie, J.J.1    Johnston, J.S.2    Cannone, J.J.3    Gutell, R.R.4
  • 56
    • 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
  • 57
    • 0035919726 scopus 로고    scopus 로고
    • AA.AG@helix.ends: A:A and A:G base-pairs at the ends of 16 and 23 S rRNA helices
    • Elgavish, T., Cannone, J. J., Lee, J. C., Harvey, S. C., and Gutell, R. R. (2001) AA.AG@helix.ends: A:A and A:G base-pairs at the ends of 16 and 23 S rRNA helices J. Mol. Biol. 310, 735-753
    • (2001) J. Mol. Biol. , vol.310 , pp. 735-753
    • Elgavish, T.1    Cannone, J.J.2    Lee, J.C.3    Harvey, S.C.4    Gutell, R.R.5
  • 58
    • 0028071557 scopus 로고
    • Collection of small-subunit (16s- and 16s-like) ribosomal-RNA structures: 1994
    • Gutell, R. R. (1994) Collection of small-subunit (16s- and 16s-like) ribosomal-RNA structures: 1994 Nucleic Acids Res. 22, 3502-3507
    • (1994) Nucleic Acids Res. , vol.22 , pp. 3502-3507
    • Gutell, R.R.1
  • 59
    • 0023742397 scopus 로고
    • A Compilation of Large Subunit RNA Sequences Presented in a Structural Format
    • Gutell, R. R. and Fox, G. E. (1988) A Compilation of Large Subunit RNA Sequences Presented in a Structural Format Nucleic Acids Res. 16, R175-R269
    • (1988) Nucleic Acids Res. , vol.16
    • Gutell, R.R.1    Fox, G.E.2
  • 60
    • 0027225783 scopus 로고
    • A compilation of large subunit (23s-like and 23s-like) ribosomal-RNA structures: 1993
    • Gutell, R. R., Gray, M. W., and Schnare, M. N. (1993) A compilation of large subunit (23s-like 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
  • 62
    • 0030299990 scopus 로고    scopus 로고
    • G•A and U•U mismatches can stabilize RNA internal loops of three nucleotides
    • Schroeder, S., Kim, J., and Turner, D. H. (1996) G•A and U•U mismatches can stabilize RNA internal loops of three nucleotides Biochemistry 35, 16105-16109
    • (1996) Biochemistry , vol.35 , pp. 16105-16109
    • Schroeder, S.1    Kim, J.2    Turner, D.H.3
  • 63
    • 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
  • 64
    • 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
  • 65
    • 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
  • 66
    • 41849129277 scopus 로고    scopus 로고
    • Thermodynamic characterization of the complete set of sequence symmetric tandem mismatches in RNA and an improved model for predicting the free energy contribution of sequence asymmetric tandem mismatches
    • Christiansen, M. E. and Znosko, B. M. (2008) Thermodynamic characterization of the complete set of sequence symmetric tandem mismatches in RNA and an improved model for predicting the free energy contribution of sequence asymmetric tandem mismatches Biochemistry 47, 4329-4336
    • (2008) Biochemistry , vol.47 , pp. 4329-4336
    • Christiansen, M.E.1    Znosko, B.M.2
  • 67
    • 69049109912 scopus 로고    scopus 로고
    • Thermodynamic characterization of tandem mismatches found in naturally occurring RNA
    • Christiansen, M. E. and Znosko, B. M. (2009) Thermodynamic characterization of tandem mismatches found in naturally occurring RNA Nucleic Acids Res. 37, 4696-4706
    • (2009) Nucleic Acids Res. , vol.37 , pp. 4696-4706
    • Christiansen, M.E.1    Znosko, B.M.2


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