메뉴 건너뛰기




Volumn 14, Issue 9, 2008, Pages 1845-1851

Noncanonical G(syn)-G(anti) base pairs stabilized by sulphate anions in two X-ray structures of the (GUGGUCUGAUGAGGCC) RNA duplex

Author keywords

Base pairing; Crystal structure; Duplex; G(syn) G(anti); RNA; Sulphate anion

Indexed keywords

ANION; COMPLEMENTARY RNA; PURINE; SULFATE;

EID: 50649124723     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.1164308     Document Type: Article
Times cited : (12)

References (26)
  • 2
    • 0026593806 scopus 로고
    • Thermodynamic parameters for loop formation in RNA and DNA hairpin tetraloops
    • Antao, V.P. and Tinoco Jr., I. 1992. Thermodynamic parameters for loop formation in RNA and DNA hairpin tetraloops. Nucleic Acids Res. 20: 819-824.
    • (1992) Nucleic Acids Res , vol.20 , pp. 819-824
    • Antao, V.P.1    Tinoco Jr., I.2
  • 4
    • 34249655673 scopus 로고    scopus 로고
    • SwS: A solvation web service for nucleic acids
    • Auffinger, P. and Hashem, Y. 2007. SwS: A solvation web service for nucleic acids. Bioinformatics 23: 1035-1037.
    • (2007) Bioinformatics , vol.23 , pp. 1035-1037
    • Auffinger, P.1    Hashem, Y.2
  • 6
    • 0034718521 scopus 로고    scopus 로고
    • 2 and determinants of stability for single guanosine-guanosine base pairs
    • 2 and determinants of stability for single guanosine-guanosine base pairs. Biochemistry 39: 11748-11762.
    • (2000) Biochemistry , vol.39 , pp. 11748-11762
    • Burkard, M.E.1    Turner, D.H.2
  • 7
    • 0028103275 scopus 로고
    • The CCP4 suite: Programs for protein crystallography
    • Collaborative Computational Project 4
    • Collaborative Computational Project 4. 1994. The CCP4 suite: Programs for protein crystallography. Acta Crystallogr. D Biol. Crystallogr. 50: 760-763.
    • (1994) Acta Crystallogr. D Biol. Crystallogr , vol.50 , pp. 760-763
  • 8
    • 0032544507 scopus 로고    scopus 로고
    • Two distinct modes of protein-induced bending in DNA
    • El Hassan, M.A. and Calladine, C.R. 1998. Two distinct modes of protein-induced bending in DNA. J. Mol. Biol. 282: 331-343.
    • (1998) J. Mol. Biol , vol.282 , pp. 331-343
    • El Hassan, M.A.1    Calladine, C.R.2
  • 9
    • 0034624979 scopus 로고    scopus 로고
    • The crystal structure of the Rev binding element of HIV-1 reveals novel base pairing and conformational variability
    • Hung, L.-W., Holbrook, E.L., and Holbrook, S.R. 2000. The crystal structure of the Rev binding element of HIV-1 reveals novel base pairing and conformational variability. Proc. Natl. Acad. Sci. 97: 5107-5112.
    • (2000) Proc. Natl. Acad. Sci , vol.97 , pp. 5107-5112
    • Hung, L.-W.1    Holbrook, E.L.2    Holbrook, S.R.3
  • 10
    • 0034723137 scopus 로고    scopus 로고
    • The structure of the HIV-1 RRE high affinity Rev binding site at 1.6 Å resolution
    • Ippolito, J.A. and Steitz, T. 2000. The structure of the HIV-1 RRE high affinity Rev binding site at 1.6 Å resolution. J. Mol. Biol. 295: 711-717.
    • (2000) J. Mol. Biol , vol.295 , pp. 711-717
    • Ippolito, J.A.1    Steitz, T.2
  • 12
    • 0035423087 scopus 로고    scopus 로고
    • The kink-turn: A new RNA secondary structure motif
    • Klein, D.J., Schmeing, T.M., Moore, P.B., and Steitz, T.A. 2001. The kink-turn: A new RNA secondary structure motif. EMBO J. 20: 4214-4221.
    • (2001) EMBO J , vol.20 , pp. 4214-4221
    • Klein, D.J.1    Schmeing, T.M.2    Moore, P.B.3    Steitz, T.A.4
  • 13
    • 0035010211 scopus 로고    scopus 로고
    • Geometric nomenclature and classification of RNA base pairs
    • Leontis, N.B. and Westhof, E. 2001. Geometric nomenclature and classification of RNA base pairs. RNA 7: 499-512.
    • (2001) RNA , vol.7 , pp. 499-512
    • Leontis, N.B.1    Westhof, E.2
  • 14
    • 0242396923 scopus 로고    scopus 로고
    • 3DNA: A software for the analysis, the rebuilding and the vizualisation of three-dimensional nucleic acid structures
    • doi: 10.1093/nar/gkg680
    • Lu, X.-J. and Olson, W.K. 2003. 3DNA: A software for the analysis, the rebuilding and the vizualisation of three-dimensional nucleic acid structures. Nucleic Acids Res. 31: 5108-5121. doi: 10.1093/nar/gkg680.
    • (2003) Nucleic Acids Res , vol.31 , pp. 5108-5121
    • Lu, X.-J.1    Olson, W.K.2
  • 15
    • 0032879334 scopus 로고    scopus 로고
    • A sulfate pocket formed by three GoU pairs in the 0.97Å resolution X-ray structure of a nonameric RNA
    • Masquida, B., Sauter, C., and Westhof, E. 1999. A sulfate pocket formed by three GoU pairs in the 0.97Å resolution X-ray structure of a nonameric RNA. RNA 5: 1384-1395.
    • (1999) RNA , vol.5 , pp. 1384-1395
    • Masquida, B.1    Sauter, C.2    Westhof, E.3
  • 17
    • 0032419499 scopus 로고    scopus 로고
    • On the role of magnesium ions in RNA stability
    • Misra, V.K. and Draper, D.E. 1998. On the role of magnesium ions in RNA stability. Biopolymers 48: 113-135.
    • (1998) Biopolymers , vol.48 , pp. 113-135
    • Misra, V.K.1    Draper, D.E.2
  • 19
    • 84920325457 scopus 로고
    • AMoRe: An automated package for molecular replacement
    • Navaza, J. 1994. AMoRe: An automated package for molecular replacement. Acta Crystallogr. A 50: 157-163.
    • (1994) Acta Crystallogr. A , vol.50 , pp. 157-163
    • Navaza, J.1
  • 20
    • 0031059866 scopus 로고    scopus 로고
    • Processing of X-ray diffraction data collected in oscillation mode
    • eds. C.W. Carter and R.M. Sweet, Academic Press, New York
    • Otwinowski, Z. and Minor, W. 1997. Processing of X-ray diffraction data collected in oscillation mode. In Methods in enzymology (eds. C.W. Carter and R.M. Sweet), Vol. 276, pp. 307-325. Academic Press, New York.
    • (1997) Methods in enzymology , vol.276 , pp. 307-325
    • Otwinowski, Z.1    Minor, W.2
  • 24
    • 0029073091 scopus 로고
    • The crystal structure of an all-RNA hammerhead ribozyme: A proposed mechanism for RNA catalytic cleavage
    • Scott, W.G., Finch, J.T., and Klug, A. 1995. The crystal structure of an all-RNA hammerhead ribozyme: A proposed mechanism for RNA catalytic cleavage. Cell 81: 991-1002.
    • (1995) Cell , vol.81 , pp. 991-1002
    • Scott, W.G.1    Finch, J.T.2    Klug, A.3
  • 25
    • 36248966494 scopus 로고    scopus 로고
    • The 1.3Å resolution structure of the RNAtridecamer r(GCGUUUGAAACGC): Metal ion binding correlates with base unstacking and groove contraction
    • Timsit, Y. and Bombard, S. 2007. The 1.3Å resolution structure of the RNAtridecamer r(GCGUUUGAAACGC): Metal ion binding correlates with base unstacking and groove contraction. RNA 13: 2098-2107.
    • (2007) RNA , vol.13 , pp. 2098-2107
    • Timsit, Y.1    Bombard, S.2
  • 26
    • 0034846114 scopus 로고    scopus 로고
    • Do the 16 mer, 5′-GUGGUCUG AUGAGGCC-3′ and the 25 mer, 5′-GGCCGAAACUCGUAAGAG UCACCAC-3′, form a hammerhead ribozyme structure in physiological conditions? An NMR and UV thermodynamic study
    • Zamaratski, E., Trifonova, A., Acharya, P., Isaksson, J., Maltseva, T., and Chattopadhayaya, J. 2001. Do the 16 mer, 5′-GUGGUCUG AUGAGGCC-3′ and the 25 mer, 5′-GGCCGAAACUCGUAAGAG UCACCAC-3′, form a hammerhead ribozyme structure in physiological conditions? An NMR and UV thermodynamic study. Nucleosides Nucleotides Nucleic Acids 20: 1219-1223.
    • (2001) Nucleosides Nucleotides Nucleic Acids , vol.20 , pp. 1219-1223
    • Zamaratski, E.1    Trifonova, A.2    Acharya, P.3    Isaksson, J.4    Maltseva, T.5    Chattopadhayaya, J.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.