메뉴 건너뛰기




Volumn 19, Issue 9, 2011, Pages 1233-1240

RNA tertiary interactions in a riboswitch stabilize the structure of a kink turn

Author keywords

[No Author keywords available]

Indexed keywords

MAGNESIUM ION; RNA;

EID: 80052447978     PISSN: 09692126     EISSN: 18784186     Source Type: Journal    
DOI: 10.1016/j.str.2011.07.003     Document Type: Article
Times cited : (56)

References (33)
  • 2
    • 49149135789 scopus 로고
    • Deoxynucleoside phosphoramidites: A new class of key intermediates for deoxypolynucleotide synthesis
    • S.L. Beaucage, and M.H. Caruthers Deoxynucleoside phosphoramidites: a new class of key intermediates for deoxypolynucleotide synthesis Tetrahedron Lett. 22 1981 1859 1862
    • (1981) Tetrahedron Lett. , vol.22 , pp. 1859-1862
    • Beaucage, S.L.1    Caruthers, M.H.2
  • 3
    • 43449093704 scopus 로고    scopus 로고
    • Mutations outside the anisomycin-binding site can make ribosomes drug-resistant
    • G. Blaha, G. Gürel, S.J. Schroeder, P.B. Moore, and T.A. Steitz Mutations outside the anisomycin-binding site can make ribosomes drug-resistant J. Mol. Biol. 379 2008 505 519
    • (2008) J. Mol. Biol. , vol.379 , pp. 505-519
    • Blaha, G.1    Gürel, G.2    Schroeder, S.J.3    Moore, P.B.4    Steitz, T.A.5
  • 4
    • 34447528960 scopus 로고    scopus 로고
    • A loop-loop interaction and a K-turn motif located in the lysine aptamer domain are important for the riboswitch gene regulation control
    • DOI 10.1261/rna.560307
    • S. Blouin, and D.A. Lafontaine A loop loop interaction and a K-turn motif located in the lysine aptamer domain are important for the riboswitch gene regulation control RNA 13 2007 1256 1267 (Pubitemid 47080471)
    • (2007) RNA , vol.13 , Issue.8 , pp. 1256-1267
    • Blouin, S.1    Lafontaine, D.A.2
  • 5
    • 0026687952 scopus 로고
    • Fluorescence resonance energy transfer and nucleic acids
    • R.M. Clegg Fluorescence resonance energy transfer and nucleic acids Methods Enzymol. 211 1992 353 388
    • (1992) Methods Enzymol. , vol.211 , pp. 353-388
    • Clegg, R.M.1
  • 6
    • 0030711050 scopus 로고    scopus 로고
    • Site-specific pseudouridine formation in preribosomal RNA is guided by small nucleolar RNAs
    • P. Ganot, M.L. Bortolin, and T. Kiss Site-specific pseudouridine formation in preribosomal RNA is guided by small nucleolar RNAs Cell 89 1997 799 809 (Pubitemid 27516183)
    • (1997) Cell , vol.89 , Issue.5 , pp. 799-809
    • Ganot, P.1    Bortolin, M.-L.2    Kiss, T.3
  • 8
    • 1642458421 scopus 로고    scopus 로고
    • The kink-turn motif in RNA is dimorphic, and metal ion-dependent
    • DOI 10.1261/rna.5176604
    • T.A. Goody, S.E. Melcher, D.G. Norman, and D.M.J. Lilley The kink-turn motif in RNA is dimorphic, and metal ion-dependent RNA 10 2004 254 264 (Pubitemid 38129830)
    • (2004) RNA , vol.10 , Issue.2 , pp. 254-264
    • Goody, T.A.1    Melcher, S.E.2    Norman, D.G.3    Lilley, D.M.J.4
  • 9
    • 2342638215 scopus 로고    scopus 로고
    • Structure of protein L7Ae bound to a K-turn derived from an archaeal box H/ACA sRNA at 1.8 A resolution
    • DOI 10.1016/j.str.2004.03.015, PII S0969212604000966
    • T. Hamma, and A.R. Ferré-D'Amaré Structure of protein L7Ae bound to a K-turn derived from an archaeal box H/ACA sRNA at 1.8 A resolution Structure 12 2004 893 903 (Pubitemid 38595777)
    • (2004) Structure , vol.12 , Issue.5 , pp. 893-903
    • Hamma, T.1    Ferre-D'Amare, A.R.2
  • 10
    • 79953691150 scopus 로고    scopus 로고
    • Tertiary contacts control switching of the SAM-I riboswitch
    • S.P. Hennelly, and K.Y. Sanbonmatsu Tertiary contacts control switching of the SAM-I riboswitch Nucleic Acids Res. 39 2011 2416 2431
    • (2011) Nucleic Acids Res. , vol.39 , pp. 2416-2431
    • Hennelly, S.P.1    Sanbonmatsu, K.Y.2
  • 11
    • 38949114262 scopus 로고    scopus 로고
    • Folding of the SAM aptamer is determined by the formation of a K-turn-dependent pseudoknot
    • DOI 10.1021/bi701164y
    • B. Heppell, and D.A. Lafontaine Folding of the SAM aptamer is determined by the formation of a K-turn-dependent pseudoknot Biochemistry 47 2008 1490 1499 (Pubitemid 351231200)
    • (2008) Biochemistry , vol.47 , Issue.6 , pp. 1490-1499
    • Heppell, B.1    Lafontaine, D.A.2
  • 12
    • 0030604698 scopus 로고    scopus 로고
    • Site-specific ribose methylation of preribosomal RNA: A novel function for small nucleolar RNAs
    • DOI 10.1016/S0092-8674(00)81308-2
    • Z. Kiss-László, Y. Henry, J.P. Bachellerie, M. Caizergues-Ferrer, and T. Kiss Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs Cell 85 1996 1077 1088 (Pubitemid 26231174)
    • (1996) Cell , vol.85 , Issue.7 , pp. 1077-1088
    • Kiss-Laszlo, Z.1    Henry, Y.2    Bachellerie, J.-P.3    Caizergues-Ferrer, M.4    Kiss, T.5
  • 13
    • 0035423087 scopus 로고    scopus 로고
    • The kink-turn: A new RNA secondary structure motif
    • DOI 10.1093/emboj/20.15.4214
    • D.J. Klein, T.M. Schmeing, P.B. Moore, and T.A. Steitz The kink-turn: a new RNA secondary structure motif EMBO J. 20 2001 4214 4221 (Pubitemid 32751837)
    • (2001) EMBO Journal , vol.20 , Issue.15 , pp. 4214-4221
    • Klein, D.J.1    Schmeing, T.M.2    Moore, P.B.3    Steitz, T.A.4
  • 14
    • 33846441637 scopus 로고    scopus 로고
    • The role of specific 2′-hydroxyl groups in the stabilization of the folded conformation of kink-turn RNA
    • DOI 10.1261/rna.285707
    • J. Liu, and D.M.J. Lilley The role of specific 2′-hydroxyl groups in the stabilization of the folded conformation of kink-turn RNA RNA 13 2007 200 210 (Pubitemid 46147896)
    • (2007) RNA , vol.13 , Issue.2 , pp. 200-210
    • Liu, J.1    Lilley, D.M.J.2
  • 15
    • 78649529299 scopus 로고    scopus 로고
    • SAM recognition and conformational switching mechanism in the Bacillus subtilis yitJ S box/SAM-I riboswitch
    • C. Lu, F. Ding, A. Chowdhury, V. Pradhan, J. Tomsic, W.M. Holmes, T.M. Henkin, and A. Ke SAM recognition and conformational switching mechanism in the Bacillus subtilis yitJ S box/SAM-I riboswitch J. Mol. Biol. 404 2010 803 818
    • (2010) J. Mol. Biol. , vol.404 , pp. 803-818
    • Lu, C.1    Ding, F.2    Chowdhury, A.3    Pradhan, V.4    Tomsic, J.5    Holmes, W.M.6    Henkin, T.M.7    Ke, A.8
  • 16
    • 0141940267 scopus 로고    scopus 로고
    • Biochemical characterization of the kink-turn RNA motif
    • DOI 10.1093/nar/gkg760
    • S. Matsumura, Y. Ikawa, and T. Inoue Biochemical characterization of the kink-turn RNA motif Nucleic Acids Res. 31 2003 5544 5551 (Pubitemid 37441924)
    • (2003) Nucleic Acids Research , vol.31 , Issue.19 , pp. 5544-5551
    • Matsumura, S.1    Ikawa, Y.2    Inoue, T.3
  • 17
    • 33745628336 scopus 로고    scopus 로고
    • Structure of the S-adenosylmethionine riboswitch regulatory mRNA element
    • DOI 10.1038/nature04819, PII N04819
    • R.K. Montange, and R.T. Batey Structure of the S-adenosylmethionine riboswitch regulatory mRNA element Nature 441 2006 1172 1175 (Pubitemid 43990740)
    • (2006) Nature , vol.441 , Issue.7097 , pp. 1172-1175
    • Montange, R.K.1    Batey, R.T.2
  • 19
    • 2342475659 scopus 로고    scopus 로고
    • Molecular basis of box C/D RNA-protein interactions: Cocrystal structure of archaeal L7Ae and a box C/D RNA
    • DOI 10.1016/j.str.2004.02.033, PII S0969212604001169
    • T. Moore, Y. Zhang, M.O. Fenley, and H. Li Molecular basis of box C/D RNA-protein interactions; cocrystal structure of archaeal L7Ae and a box C/D RNA Structure 12 2004 807 818 (Pubitemid 38595769)
    • (2004) Structure , vol.12 , Issue.5 , pp. 807-818
    • Moore, T.1    Zhang, Y.2    Fenley, M.O.3    Li, H.4
  • 20
    • 0033229873 scopus 로고    scopus 로고
    • Functional interaction of a novel 15.5kD [U4/U6·U5] tri-snRNP protein with the 5' stem-loop of U4 snRNA
    • DOI 10.1093/emboj/18.21.6119
    • S. Nottrott, K. Hartmuth, P. Fabrizio, H. Urlaub, I. Vidovic, R. Ficner, and R. Lührmann Functional interaction of a novel 15.5kD [U4/U6.U5] tri-snRNP protein with the 5′ stem-loop of U4 snRNA EMBO J. 18 1999 6119 6133 (Pubitemid 29515687)
    • (1999) EMBO Journal , vol.18 , Issue.21 , pp. 6119-6133
    • Nottrott, S.1    Hartmuth, K.2    Fabrizio, P.3    Urlaub, H.4    Vidovic, I.5    Ficner, R.6    Luhrmann, R.7
  • 21
    • 67650713931 scopus 로고    scopus 로고
    • The structural and functional diversity of metabolite-binding riboswitches
    • A. Roth, and R.R. Breaker The structural and functional diversity of metabolite-binding riboswitches Annu. Rev. Biochem. 78 2009 305 334
    • (2009) Annu. Rev. Biochem. , vol.78 , pp. 305-334
    • Roth, A.1    Breaker, R.R.2
  • 22
    • 0037324527 scopus 로고    scopus 로고
    • Binding of L7Ae protein to the K-turn of archaeal snoRNAs: A shared RNA binding motif for C/D and H/ACA box snoRNAs in Archaea
    • DOI 10.1093/nar/gkg175
    • T.S. Rozhdestvensky, T.H. Tang, I.V. Tchirkova, J. Brosius, J.-P. Bachellerie, and A. Hüttenhofer Binding of L7Ae protein to the K-turn of archaeal snoRNAs: a shared RNA binding motif for C/D and H/ACA box snoRNAs in Archaea Nucleic Acids Res. 31 2003 869 877 (Pubitemid 36240424)
    • (2003) Nucleic Acids Research , vol.31 , Issue.3 , pp. 869-877
    • Rozhdestvensky, T.S.1    Tang, T.H.2    Tchirkova, I.V.3    Brosius, J.4    Bachellerie, J.-P.5    Huttenhofer, A.6
  • 23
    • 75349113989 scopus 로고    scopus 로고
    • Ion-induced folding of a kink turn that departs from the conventional sequence
    • K.T. Schroeder, and D.M.J. Lilley Ion-induced folding of a kink turn that departs from the conventional sequence Nucleic Acids Res. 37 2009 7281 7289
    • (2009) Nucleic Acids Res. , vol.37 , pp. 7281-7289
    • Schroeder, K.T.1    Lilley, D.M.J.2
  • 24
    • 77955118828 scopus 로고    scopus 로고
    • A structural database for k-turn motifs in RNA
    • K.T. Schroeder, S.A. McPhee, J. Ouellet, and D.M. Lilley A structural database for k-turn motifs in RNA RNA 16 2010 1463 1468
    • (2010) RNA , vol.16 , pp. 1463-1468
    • Schroeder, K.T.1    McPhee, S.A.2    Ouellet, J.3    Lilley, D.M.4
  • 25
    • 0036773686 scopus 로고    scopus 로고
    • Exclusive interaction of the 15.5 kD protein with the terminal box C/D motif of a methylation guide snoRNP
    • DOI 10.1016/S1074-5521(02)00239-9, PII S1074552102002399
    • L.B. Szewczak, S.J. DeGregorio, S.A. Strobel, and J.A. Steitz Exclusive interaction of the 15.5 kD protein with the terminal box C/D motif of a methylation guide snoRNP Chem. Biol. 9 2002 1095 1107 (Pubitemid 35240932)
    • (2002) Chemistry and Biology , vol.9 , Issue.10 , pp. 1095-1107
    • Szewczak, L.B.W.1    DeGregorio, S.J.2    Strobel, S.A.3    Steitz, J.A.4
  • 26
    • 47049124440 scopus 로고    scopus 로고
    • The importance of G.A hydrogen bonding in the metal ion- and protein-induced folding of a kink turn RNA
    • B. Turner, and D.M. Lilley The importance of G.A hydrogen bonding in the metal ion- and protein-induced folding of a kink turn RNA J. Mol. Biol. 381 2008 431 442
    • (2008) J. Mol. Biol. , vol.381 , pp. 431-442
    • Turner, B.1    Lilley, D.M.2
  • 27
    • 22244483207 scopus 로고    scopus 로고
    • Induced fit of RNA on binding the L7Ae protein to the kink-turn motif
    • DOI 10.1261/rna.2680605
    • B. Turner, S.E. Melcher, T.J. Wilson, D.G. Norman, and D.M.J. Lilley Induced fit of RNA on binding the L7Ae protein to the kink-turn motif RNA 11 2005 1192 1200 (Pubitemid 41132391)
    • (2005) RNA , vol.11 , Issue.8 , pp. 1192-1200
    • Turner, B.1    Melcher, S.E.2    Wilson, T.J.3    Norman, D.G.4    Lilley, D.M.J.5
  • 29
    • 0034509631 scopus 로고    scopus 로고
    • Crystal structure of the spliceosomal 15.5kD protein bound to a U4 snRNA fragment
    • DOI 10.1016/S1097-2765(00)00131-3
    • I. Vidovic, S. Nottrott, K. Hartmuth, R. Lührmann, and R. Ficner Crystal structure of the spliceosomal 15.5kD protein bound to a U4 snRNA fragment Mol. Cell 6 2000 1331 1342 (Pubitemid 32045926)
    • (2000) Molecular Cell , vol.6 , Issue.6 , pp. 1331-1342
    • Vidovic, I.1    Nottrott, S.2    Hartmuth, K.3    Luhrmann, R.4    Ficner, R.5
  • 30
    • 0035916297 scopus 로고    scopus 로고
    • Importance of specific nucleotides in the folding of the natural form of the hairpin ribozyme
    • DOI 10.1021/bi002644p
    • T.J. Wilson, Z.-Y. Zhao, K. Maxwell, L. Kontogiannis, and D.M.J. Lilley Importance of specific nucleotides in the folding of the natural form of the hairpin ribozyme Biochemistry 40 2001 2291 2302 (Pubitemid 32165701)
    • (2001) Biochemistry , vol.40 , Issue.7 , pp. 2291-2302
    • Wilson, T.J.1    Zhao, Z.-Y.2    Maxwell, K.3    Kontogiannis, L.4    Lilley, D.M.J.5
  • 32
    • 0042320361 scopus 로고    scopus 로고
    • An mRNA structure that controls gene expression by binding S-adenosylmethionine
    • DOI 10.1038/nsb967
    • W.C. Winkler, A. Nahvi, N. Sudarsan, J.E. Barrick, and R.R. Breaker An mRNA structure that controls gene expression by binding S-adenosylmethionine Nat. Struct. Biol. 10 2003 701 707 (Pubitemid 37052407)
    • (2003) Nature Structural Biology , vol.10 , Issue.9 , pp. 701-707
    • Winkler, W.C.1    Nahvi, A.2    Sudarsan, N.3    Barrick, J.E.4    Breaker, R.R.5
  • 33
    • 25844527373 scopus 로고    scopus 로고
    • Detecting protein-induced folding of the U4 snRNA kink-turn by single-molecule multiparameter FRET measurements
    • DOI 10.1261/rna.2950605
    • A.K. Woźniak, S. Nottrott, E. Kühn-Hölsken, G.F. Schröder, H. Grubmüller, R. Lührmann, C.A. Seidel, and F. Oesterhelt Detecting protein-induced folding of the U4 snRNA kink-turn by single-molecule multiparameter FRET measurements RNA 11 2005 1545 1554 (Pubitemid 41396924)
    • (2005) RNA , vol.11 , Issue.10 , pp. 1545-1554
    • Wozniak, A.K.1    Nottrott, S.2    Kuhn-Holsken, E.3    Schroder, G.F.4    Grubmuller, H.5    Luhrmann, R.6    Seidel, C.A.M.7    Oesterhelt, F.8


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.