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Volumn 22, Issue 1, 2016, Pages 22-31

Watson-Crick-like pairs in CCUG repeats: Evidence for tautomeric shifts or protonation

Author keywords

CCUG repeats; Myotonic dystrophy type 2; Tautomerism; Thermodynamics; X ray crystallography

Indexed keywords

NUCLEIC ACID BASE; OLIGOMER; PROTON; RNA;

EID: 85009814476     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.052399.115     Document Type: Article
Times cited : (14)

References (60)
  • 4
    • 0142027590 scopus 로고    scopus 로고
    • Confirmation of the type 2 myotonic dystrophy (CCTG) n expansion mutation in patients with proximal myotonic myopathy/proximal myotonic dystrophy of different European origins: A single shared haplotype indicates an ancestral founder effect
    • Bachinski LL, Udd B, Meola G, Sansone V, Bassez G, Eymard B, Thornton CA, Moxley RT, Harper PS, Rogers MT, et al. 2003. Confirmation of the type 2 myotonic dystrophy (CCTG) n expansion mutation in patients with proximal myotonic myopathy/proximal myotonic dystrophy of different European origins: a single shared haplotype indicates an ancestral founder effect. Am J Hum Genet 73:835-848.
    • (2003) Am J Hum Genet , vol.73 , pp. 835-848
    • Bachinski, L.L.1    Udd, B.2    Meola, G.3    Sansone, V.4    Bassez, G.5    Eymard, B.6    Thornton, C.A.7    Moxley, R.T.8    Harper, P.S.9    Rogers, M.T.10
  • 5
    • 33748559498 scopus 로고    scopus 로고
    • Nucleobase catalysis in ribozyme mechanism
    • Bevilacqua PC, Yajima R. 2006. Nucleobase catalysis in ribozyme mechanism. Curr Opin Chem Biol 10:455-464.
    • (2006) Curr Opin Chem Biol , vol.10 , pp. 455-464
    • Bevilacqua, P.C.1    Yajima, R.2
  • 6
    • 23844465175 scopus 로고    scopus 로고
    • Thermodynamic stability of RNA structures formed by CNG trinucleotide repeats. Implication for prediction of RNA structure
    • Broda M, Kierzek E, Gdaniec Z, Kulinski T, Kierzek R. 2005. Thermodynamic stability of RNA structures formed by CNG trinucleotide repeats. Implication for prediction of RNA structure. Biochemistry 44:10873-10882.
    • (2005) Biochemistry , vol.44 , pp. 10873-10882
    • Broda, M.1    Kierzek, E.2    Gdaniec, Z.3    Kulinski, T.4    Kierzek, R.5
  • 7
    • 0026566108 scopus 로고
    • Molecular basis of myotonic dystrophy: Expansion of a trinucleotide (CTG) repeat at the 3' end of a transcript encoding a protein kinase family member
    • Brook JD, McCurrach ME, Harley HG, Buckler AJ, Church D, Aburatani H, Hunter K, Stanton VP, Thirion JP, Hudson T, et al. 1992. Molecular basis of myotonic dystrophy: expansion of a trinucleotide (CTG) repeat at the 3' end of a transcript encoding a protein kinase family member. Cell 69:799-808.
    • (1992) Cell , vol.69 , pp. 799-808
    • Brook, J.D.1    McCurrach, M.E.2    Harley, H.G.3    Buckler, A.J.4    Church, D.5    Aburatani, H.6    Hunter, K.7    Stanton, V.P.8    Thirion, J.P.9    Hudson, T.10
  • 9
    • 84867811039 scopus 로고    scopus 로고
    • Utilizing the GAAA tetraloop/receptor to facilitate crystal packing and determination of the structure of a CUG RNA helix
    • Coonrod LA, Lohman JR, Berglund JA. 2012. Utilizing the GAAA tetraloop/receptor to facilitate crystal packing and determination of the structure of a CUG RNA helix. Biochemistry 51:8330-8337.
    • (2012) Biochemistry , vol.51 , pp. 8330-8337
    • Coonrod, L.A.1    Lohman, J.R.2    Berglund, J.A.3
  • 10
    • 0242713120 scopus 로고    scopus 로고
    • Twinned crystals and anomalous phasing
    • Dauter Z. 2003. Twinned crystals and anomalous phasing. Acta Crystallogr D Biol Crystallogr 59:2004-2016.
    • (2003) Acta Crystallogr D Biol Crystallogr , vol.59 , pp. 2004-2016
    • Dauter, Z.1
  • 12
  • 13
    • 84878947991 scopus 로고    scopus 로고
    • New structural insights into the decoding mechanism: Translation infidelity via a GU pair with Watson-Crick geometry
    • Demeshkina N, Jenner L, Westhof E, Yusupov M, Yusupova G. 2013. New structural insights into the decoding mechanism: translation infidelity via a GU pair with Watson-Crick geometry. FEBS Lett 587:1848-1857.
    • (2013) FEBS Lett , vol.587 , pp. 1848-1857
    • Demeshkina, N.1    Jenner, L.2    Westhof, E.3    Yusupov, M.4    Yusupova, G.5
  • 14
    • 33746614482 scopus 로고
    • Gaussian-basis sets for use in correlated molecular calculations.1. The atoms boron through neon and hydrogen
    • Dunning TH. 1989. Gaussian-basis sets for use in correlated molecular calculations.1. The atoms boron through neon and hydrogen. J Chem Phys 90:1007-1023.
    • (1989) J Chem Phys , vol.90 , pp. 1007-1023
    • Dunning, T.H.1
  • 16
    • 0036537492 scopus 로고    scopus 로고
    • Three proteins, MBNL, MBLL and MBXL, co-localize in vivo with nuclear foci of expanded-repeat transcripts in DM1 and DM2 cells
    • Fardaei M, Rogers MT, Thorpe HM, Larkin K, Hamshere MG, Harper PS, Brook JD. 2002. Three proteins, MBNL, MBLL and MBXL, co-localize in vivo with nuclear foci of expanded-repeat transcripts in DM1 and DM2 cells. Hum Mol Genet 11:805-814.
    • (2002) Hum Mol Genet , vol.11 , pp. 805-814
    • Fardaei, M.1    Rogers, M.T.2    Thorpe, H.M.3    Larkin, K.4    Hamshere, M.G.5    Harper, P.S.6    Brook, J.D.7
  • 18
    • 66349133602 scopus 로고    scopus 로고
    • Adaptive ligand binding by the purine riboswitch in the recognition of guanine and adenine analogs
    • Gilbert SD, Reyes FE, Edwards AL, Batey RT. 2009. Adaptive ligand binding by the purine riboswitch in the recognition of guanine and adenine analogs. Structure 17:857-868.
    • (2009) Structure , vol.17 , pp. 857-868
    • Gilbert, S.D.1    Reyes, F.E.2    Edwards, A.L.3    Batey, R.T.4
  • 22
    • 48449099381 scopus 로고    scopus 로고
    • PBEQ-Solver for online visualization of electrostatic potential of biomolecules
    • Jo S, Vargyas M, Vasko-Szedlar J, Roux B, Im W. 2008. PBEQ-Solver for online visualization of electrostatic potential of biomolecules. Nucleic Acids Res 36:W270-W275.
    • (2008) Nucleic Acids Res , vol.36 , pp. W270-W275
    • Jo, S.1    Vargyas, M.2    Vasko-Szedlar, J.3    Roux, B.4    Im, W.5
  • 24
    • 4143095330 scopus 로고
    • Electron-affinities of the 1st-row atoms revisited-systematic basis-sets and wave-functions
    • Kendall RA, Dunning TH, Harrison RJ. 1992. Electron-affinities of the 1st-row atoms revisited-systematic basis-sets and wave-functions. J Chem Phys 96:6796-6806.
    • (1992) J Chem Phys , vol.96 , pp. 6796-6806
    • Kendall, R.A.1    Dunning, T.H.2    Harrison, R.J.3
  • 25
    • 84905577624 scopus 로고    scopus 로고
    • Structural studies of CNG repeats
    • Kiliszek A, Rypniewski W. 2014. Structural studies of CNG repeats. Nucleic Acids Res 42:8189-8199.
    • (2014) Nucleic Acids Res , vol.42 , pp. 8189-8199
    • Kiliszek, A.1    Rypniewski, W.2
  • 26
    • 67651162116 scopus 로고    scopus 로고
    • Structural insights into CUG repeats containing the 'stretched U-U wobble': Implications for myotonic dystrophy
    • Kiliszek A, Kierzek R, Krzyzosiak WJ, Rypniewski W. 2009. Structural insights into CUG repeats containing the 'stretched U-U wobble': implications for myotonic dystrophy. Nucleic Acids Res 37:4149-4156.
    • (2009) Nucleic Acids Res , vol.37 , pp. 4149-4156
    • Kiliszek, A.1    Kierzek, R.2    Krzyzosiak, W.J.3    Rypniewski, W.4
  • 27
    • 78650483521 scopus 로고    scopus 로고
    • Atomic resolution structure of CAG RNA repeats: Structural insights and implications for the trinucleotide repeat expansion diseases
    • Kiliszek A, Kierzek R, Krzyzosiak WJ, Rypniewski W. 2010. Atomic resolution structure of CAG RNA repeats: structural insights and implications for the trinucleotide repeat expansion diseases. Nucleic Acids Res 38:8370-8376.
    • (2010) Nucleic Acids Res , vol.38 , pp. 8370-8376
    • Kiliszek, A.1    Kierzek, R.2    Krzyzosiak, W.J.3    Rypniewski, W.4
  • 28
    • 80052481911 scopus 로고    scopus 로고
    • Crystal structures of CGG RNA repeats with implications for fragile X-associated tremor ataxia syndrome
    • Kiliszek A, Kierzek R, Krzyzosiak WJ, Rypniewski W. 2011. Crystal structures of CGG RNA repeats with implications for fragile X-associated tremor ataxia syndrome. Nucleic Acids Res 39:7308-7315.
    • (2011) Nucleic Acids Res , vol.39 , pp. 7308-7315
    • Kiliszek, A.1    Kierzek, R.2    Krzyzosiak, W.J.3    Rypniewski, W.4
  • 31
    • 34948834723 scopus 로고    scopus 로고
    • Increased steadystate levels of CUGBP1 in myotonic dystrophy 1 are due to PKC-mediated hyperphosphorylation
    • Kuyumcu-Martinez NM, Wang GS, Cooper TA. 2007. Increased steadystate levels of CUGBP1 in myotonic dystrophy 1 are due to PKC-mediated hyperphosphorylation. Mol Cell 28:68-78.
    • (2007) Mol Cell , vol.28 , pp. 68-78
    • Kuyumcu-Martinez, N.M.1    Wang, G.S.2    Cooper, T.A.3
  • 33
    • 0242396923 scopus 로고    scopus 로고
    • 3DNA: A software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures
    • Lu XJ, Olson WK. 2003. 3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures. Nucleic Acids Res 31:5108-5121.
    • (2003) Nucleic Acids Res , vol.31 , pp. 5108-5121
    • Lu, X.J.1    Olson, W.K.2
  • 36
    • 33744762160 scopus 로고    scopus 로고
    • DM2 intronic expansions: Evidence for CCUG accumulation without flanking sequence or effects on ZNF9 mRNA processing or protein expression
    • Margolis JM, Schoser BG, Moseley ML, Day JW, Ranum LP. 2006. DM2 intronic expansions: evidence for CCUG accumulation without flanking sequence or effects on ZNF9 mRNA processing or protein expression. Hum Mol Genet 15:1808-1815.
    • (2006) Hum Mol Genet , vol.15 , pp. 1808-1815
    • Margolis, J.M.1    Schoser, B.G.2    Moseley, M.L.3    Day, J.W.4    Ranum, L.P.5
  • 39
    • 34250878426 scopus 로고    scopus 로고
    • Expandable DNA repeats and human disease
    • Mirkin SM. 2007. Expandable DNA repeats and human disease. Nature 447:932-940.
    • (2007) Nature , vol.447 , pp. 932-940
    • Mirkin, S.M.1
  • 41
    • 78049354836 scopus 로고    scopus 로고
    • Thermodynamics of RNA duplexes modified with unlocked nucleic acid nucleotides
    • Pasternak A, Wengel J. 2010. Thermodynamics of RNA duplexes modified with unlocked nucleic acid nucleotides. Nucleic Acids Res 38:6697-6706.
    • (2010) Nucleic Acids Res , vol.38 , pp. 6697-6706
    • Pasternak, A.1    Wengel, J.2
  • 43
    • 77951796655 scopus 로고    scopus 로고
    • RNA FRABASE 2.0: An advanced web-accessible database with the capacity to search the three-dimensional fragments within RNA structures
    • Popenda M, Szachniuk M, Blazewicz M, Wasik S, Burke EK, Blazewicz J, Adamiak RW. 2010. RNA FRABASE 2.0: an advanced web-accessible database with the capacity to search the three-dimensional fragments within RNA structures. BMC Bioinformatics 11:231.
    • (2010) BMC Bioinformatics , vol.11 , pp. 231
    • Popenda, M.1    Szachniuk, M.2    Blazewicz, M.3    Wasik, S.4    Burke, E.K.5    Blazewicz, J.6    Adamiak, R.W.7
  • 44
    • 33748373580 scopus 로고    scopus 로고
    • RNA-mediated neuromuscular disorders
    • Ranum LP, Cooper TA. 2006. RNA-mediated neuromuscular disorders. Annu Rev Neurosci 29:259-277.
    • (2006) Annu Rev Neurosci , vol.29 , pp. 259-277
    • Ranum, L.P.1    Cooper, T.A.2
  • 45
    • 33846999347 scopus 로고    scopus 로고
    • Hydrogen-bonded nucleic acid base pairs containing unusual base tautomers: Complete basis set calculations at the MP2 and CCSD (T) levels
    • Rejnek J, Hobza P. 2007. Hydrogen-bonded nucleic acid base pairs containing unusual base tautomers: complete basis set calculations at the MP2 and CCSD (T) levels. J Phys Chem B 111:641-645.
    • (2007) J Phys Chem B , vol.111 , pp. 641-645
    • Rejnek, J.1    Hobza, P.2
  • 46
    • 0023025109 scopus 로고
    • Studies on anticodon-anticodon interactions: Hemi-protonation of cytosines induces self-pairing through the GCC anticodon of E. Coli tRNA-Gly
    • Romby P, Westhof E, Moras D, Giege R, Houssier C, Grosjean H. 1986. Studies on anticodon-anticodon interactions: hemi-protonation of cytosines induces self-pairing through the GCC anticodon of E. coli tRNA-Gly. J Biomol Struct Dyn 4:193-203.
    • (1986) J Biomol Struct Dyn , vol.4 , pp. 193-203
    • Romby, P.1    Westhof, E.2    Moras, D.3    Giege, R.4    Houssier, C.5    Grosjean, H.6
  • 47
    • 0025925206 scopus 로고
    • Stabilities of consecutive A. C, C. C, G. G, U. C, and U. U mismatches in RNA internal loops: Evidence for stable hydrogen-bonded U. U and C. C.+ pairs
    • SantaLucia J Jr, Kierzek R, Turner DH. 1991. Stabilities of consecutive A. C, C. C, G. G, U. C, and U. U mismatches in RNA internal loops: evidence for stable hydrogen-bonded U. U and C. C.+ pairs. Biochemistry 30:8242-8251.
    • (1991) Biochemistry , vol.30 , pp. 8242-8251
    • SantaLucia, J.1    Kierzek, R.2    Turner, D.H.3
  • 48
    • 36448954303 scopus 로고    scopus 로고
    • FR3D: Finding local and composite recurrent structural motifs in RNA 3D structures
    • Sarver M, Zirbel CL, Stombaugh J, Mokdad A, Leontis NB. 2008. FR3D: finding local and composite recurrent structural motifs in RNA 3D structures. J Math Biol 56:215-252.
    • (2008) J Math Biol , vol.56 , pp. 215-252
    • Sarver, M.1    Zirbel, C.L.2    Stombaugh, J.3    Mokdad, A.4    Leontis, N.B.5
  • 50
    • 0033963034 scopus 로고    scopus 로고
    • Molden: A pre- and post-processing program for molecular and electronic structures
    • Schaftenaar G, Noordik JH. 2000. Molden: a pre- and post-processing program for molecular and electronic structures. J Comput Aided Mol Des 14:123-134.
    • (2000) J Comput Aided Mol des , vol.14 , pp. 123-134
    • Schaftenaar, G.1    Noordik, J.H.2
  • 51
    • 84886257685 scopus 로고    scopus 로고
    • Tautomerism in nucleic acid bases and base pairs: A brief overview
    • Shukla MK, Leszczynski J. 2013. Tautomerism in nucleic acid bases and base pairs: a brief overview. Wiley Interdiscip Rev Comput Mol Sci 3:637-649.
    • (2013) Wiley Interdiscip Rev Comput Mol Sci , vol.3 , pp. 637-649
    • Shukla, M.K.1    Leszczynski, J.2
  • 52
    • 84856034458 scopus 로고    scopus 로고
    • Myotonic dystrophy, when simple repeats reveal complex pathogenic entities: New findings and future challenges
    • Sicot G, Gourdon G, Gomes-Pereira M. 2011. Myotonic dystrophy, when simple repeats reveal complex pathogenic entities: new findings and future challenges. Hum Mol Genet 20:R116-123.
    • (2011) Hum Mol Genet , vol.20 , pp. R116-R123
    • Sicot, G.1    Gourdon, G.2    Gomes-Pereira, M.3
  • 53
    • 84920512700 scopus 로고    scopus 로고
    • Role of tautomerism in RNA biochemistry
    • Singh V, Fedeles BI, Essigmann JM. 2015. Role of tautomerism in RNA biochemistry. RNA 21:1-13.
    • (2015) RNA , vol.21 , pp. 1-13
    • Singh, V.1    Fedeles, B.I.2    Essigmann, J.M.3
  • 54
  • 55
    • 84866436425 scopus 로고    scopus 로고
    • The myotonic dystrophies: Molecular, clinical, and therapeutic challenges
    • Udd B, Krahe R. 2012. The myotonic dystrophies: molecular, clinical, and therapeutic challenges. Lancet Neurol 11:891-905.
    • (2012) Lancet Neurol , vol.11 , pp. 891-905
    • Udd, B.1    Krahe, R.2
  • 56
    • 80055079975 scopus 로고    scopus 로고
    • Structural evidence for the rare tautomer hypothesis of spontaneous mutagenesis
    • Wang W, Hellinga HW, Beese LS. 2011. Structural evidence for the rare tautomer hypothesis of spontaneous mutagenesis. Proc Natl Acad Sci 108:17644-17648.
    • (2011) Proc Natl Acad Sci , vol.108 , pp. 17644-17648
    • Wang, W.1    Hellinga, H.W.2    Beese, L.S.3
  • 58
    • 84904246134 scopus 로고    scopus 로고
    • Isostericity and tautomerism of base pairs in nucleic acids
    • Westhof E. 2014. Isostericity and tautomerism of base pairs in nucleic acids. FEBS Lett 588:2464-2469.
    • (2014) FEBS Lett , vol.588 , pp. 2464-2469
    • Westhof, E.1
  • 60
    • 80052716635 scopus 로고    scopus 로고
    • Cellular toxicity of expanded RNA repeats: Focus on RNA foci
    • Wojciechowska M, Krzyzosiak WJ. 2011. Cellular toxicity of expanded RNA repeats: focus on RNA foci. Hum Mol Genet 20:3811-3821.
    • (2011) Hum Mol Genet , vol.20 , pp. 3811-3821
    • Wojciechowska, M.1    Krzyzosiak, W.J.2


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