메뉴 건너뛰기




Volumn 44, Issue 1, 2016, Pages 354-363

A DNAzyme requiring two different metal ions at two distinct sites

Author keywords

[No Author keywords available]

Indexed keywords

CE13D PROTEIN; CESIUM ION; DEOXYRIBOZYME; GUANINE; HYPOXANTHINE; LANTHANIDE; METAL ION; NAA43 PROTEIN; SODIUM ION; TERBIUM; UNCLASSIFIED DRUG; CERIUM; ION; METAL; SODIUM;

EID: 84959334651     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkv1346     Document Type: Article
Times cited : (74)

References (51)
  • 1
    • 0027323465 scopus 로고
    • Metalloenzymes, structural motifs, and inorganic models
    • Karlin,K.D. (1993) Metalloenzymes, structural motifs, and inorganic models. Science, 261, 701-708.
    • (1993) Science , vol.261 , pp. 701-708
    • Karlin, K.D.1
  • 2
    • 68949195832 scopus 로고    scopus 로고
    • Design of functional metalloproteins
    • Lu,Y., Yeung,N., Sieracki,N. and Marshall,N.M. (2009) Design of functional metalloproteins. Nature, 460, 855-862.
    • (2009) Nature , vol.460 , pp. 855-862
    • Lu, Y.1    Yeung, N.2    Sieracki, N.3    Marshall, N.M.4
  • 3
    • 84899550322 scopus 로고    scopus 로고
    • Nucleic acid catalysis: Metals, nucleobases, and other cofactors
    • Ward,W.L., Plakos,K. and DeRose,V.J. (2014) Nucleic acid catalysis: metals, nucleobases, and other cofactors. Chem. Rev., 114, 4318-4342.
    • (2014) Chem. Rev. , vol.114 , pp. 4318-4342
    • Ward, W.L.1    Plakos, K.2    DeRose, V.J.3
  • 4
    • 77954857869 scopus 로고    scopus 로고
    • A stability concept for metal ion coordination to single-stranded nucleic acids and affinities of individual sites
    • Sigel,R.K. and Sigel,H. (2010) A stability concept for metal ion coordination to single-stranded nucleic acids and affinities of individual sites. Acc. Chem. Res., 43, 974-984.
    • (2010) Acc. Chem. Res. , vol.43 , pp. 974-984
    • Sigel, R.K.1    Sigel, H.2
  • 5
    • 33846887629 scopus 로고    scopus 로고
    • Alternative roles for metal ions in enzyme catalysis and the implications for ribozyme chemistry
    • Sigel,R.K. and Pyle,A.M. (2007) Alternative roles for metal ions in enzyme catalysis and the implications for ribozyme chemistry. Chem. Rev., 107, 97-113.
    • (2007) Chem. Rev. , vol.107 , pp. 97-113
    • Sigel, R.K.1    Pyle, A.M.2
  • 6
    • 0028675028 scopus 로고
    • A DNA enzyme that cleaves RNA
    • Breaker,R.R. and Joyce,G.F. (1994) A DNA enzyme that cleaves RNA. Chem. Biol., 1, 223-229.
    • (1994) Chem. Biol. , vol.1 , pp. 223-229
    • Breaker, R.R.1    Joyce, G.F.2
  • 8
    • 33744548059 scopus 로고    scopus 로고
    • Nucleic acid aptamers and enzymes as sensors
    • Navani,N.K. and Li,Y. (2006) Nucleic acid aptamers and enzymes as sensors. Curr. Opin. Chem. Biol., 10, 272-281.
    • (2006) Curr. Opin. Chem. Biol. , vol.10 , pp. 272-281
    • Navani, N.K.1    Li, Y.2
  • 10
    • 0031151976 scopus 로고    scopus 로고
    • DNA aptamers and DNA enzymes
    • Breaker,R.R. (1997) DNA aptamers and DNA enzymes. Curr. Opin. Chem. Biol., 1, 26-31.
    • (1997) Curr. Opin. Chem. Biol. , vol.1 , pp. 26-31
    • Breaker, R.R.1
  • 11
    • 0037131433 scopus 로고    scopus 로고
    • New transition metal-dependent DNAzymes as efficient endonucleases and as selective metal biosensors
    • Lu,Y. (2002) New transition metal-dependent DNAzymes as efficient endonucleases and as selective metal biosensors. Chem. Eur. J., 8, 4588-4596.
    • (2002) Chem. Eur. J. , vol.8 , pp. 4588-4596
    • Lu, Y.1
  • 12
    • 0034650291 scopus 로고    scopus 로고
    • In vitro selection and characterization of a highly efficient Zn(II)-dependent RNA-cleaving deoxyribozyme
    • Li,J., Zheng,W., Kwon,A.H. and Lu,Y. (2000) In vitro selection and characterization of a highly efficient Zn(II)-dependent RNA-cleaving deoxyribozyme. Nucleic Acids Res., 28, 481-488.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 481-488
    • Li, J.1    Zheng, W.2    Kwon, A.H.3    Lu, Y.4
  • 14
    • 0029037713 scopus 로고
    • A DNA metalloenzyme with DNA ligase activity
    • Cuenoud,B. and Szostak,J.W. (1995) A DNA metalloenzyme with DNA ligase activity. Nature, 375, 611-614.
    • (1995) Nature , vol.375 , pp. 611-614
    • Cuenoud, B.1    Szostak, J.W.2
  • 15
    • 33847779647 scopus 로고    scopus 로고
    • A catalytic beacon sensor for uranium with parts-per-trillion sensitivity and millionfold selectivity
    • Liu,J., Brown,A.K., Meng,X., Cropek,D.M., Istok,J.D., Watson,D.B. and Lu,Y. (2007) A catalytic beacon sensor for uranium with parts-per-trillion sensitivity and millionfold selectivity. Proc. Natl. Acad. Sci. U.S.A., 104, 2056-2061.
    • (2007) Proc. Natl. Acad. Sci. U.S.A. , vol.104 , pp. 2056-2061
    • Liu, J.1    Brown, A.K.2    Meng, X.3    Cropek, D.M.4    Istok, J.D.5    Watson, D.B.6    Lu, Y.7
  • 18
    • 66249097058 scopus 로고    scopus 로고
    • Functional nucleic acid sensors
    • Liu,J., Cao,Z. and Lu,Y. (2009) Functional nucleic acid sensors. Chem. Rev., 109, 1948-1998.
    • (2009) Chem. Rev. , vol.109 , pp. 1948-1998
    • Liu, J.1    Cao, Z.2    Lu, Y.3
  • 19
    • 34447547573 scopus 로고    scopus 로고
    • Smart nanomaterials inspired by biology: Dynamic assembly of error-free nanomaterials in response to multiple chemical and biological stimuli
    • Lu,Y. and Liu,J. (2007) Smart nanomaterials inspired by biology: dynamic assembly of error-free nanomaterials in response to multiple chemical and biological stimuli. Acc. Chem. Res., 40, 315-323.
    • (2007) Acc. Chem. Res. , vol.40 , pp. 315-323
    • Lu, Y.1    Liu, J.2
  • 20
    • 47749107927 scopus 로고    scopus 로고
    • Deoxyribozymes: Useful DNA catalysts in vitro and in vivo
    • Baum,D.A. and Silverman,S.K. (2008) Deoxyribozymes: useful DNA catalysts in vitro and in vivo. Cell. Mol. Life Sci., 65, 2156-2174.
    • (2008) Cell. Mol. Life Sci. , vol.65 , pp. 2156-2174
    • Baum, D.A.1    Silverman, S.K.2
  • 21
    • 62649161589 scopus 로고    scopus 로고
    • Biologically inspired synthetic enzymes made from DNA
    • Schlosser,K. and Li,Y.F. (2009) Biologically inspired synthetic enzymes made from DNA. Chem. Biol., 16, 311-322.
    • (2009) Chem. Biol. , vol.16 , pp. 311-322
    • Schlosser, K.1    Li, Y.F.2
  • 22
    • 84941087183 scopus 로고    scopus 로고
    • A new heavy lanthanide-dependent DNAzyme displaying strong metal cooperativity and unrescuable phosphorothioate effect
    • Huang,P.-J.J., Vazin,M., Matuszek,Ż. and Liu,J. (2015) A new heavy lanthanide-dependent DNAzyme displaying strong metal cooperativity and unrescuable phosphorothioate effect. Nucleic Acids Res., 43, 461-469.
    • (2015) Nucleic Acids Res. , vol.43 , pp. 461-469
    • Huang, P.-J.J.1    Vazin, M.2    Matuszek, Z.3    Liu, J.4
  • 23
    • 84907894839 scopus 로고    scopus 로고
    • In vitro selection of a new lanthanide-dependent DNAzyme for ratiometric sensing lanthanides
    • Huang,P.-J.J., Vazin,M. and Liu,J. (2014) In vitro selection of a new lanthanide-dependent DNAzyme for ratiometric sensing lanthanides. Anal. Chem., 86, 9993-9999.
    • (2014) Anal. Chem. , vol.86 , pp. 9993-9999
    • Huang, P.-J.J.1    Vazin, M.2    Liu, J.3
  • 24
    • 84893540958 scopus 로고    scopus 로고
    • Ultrasensitive DNAzyme beacon for lanthanides and metal speciation
    • Huang,P.-J.J., Lin,J., Cao,J., Vazin,M. and Liu,J. (2014) Ultrasensitive DNAzyme beacon for lanthanides and metal speciation. Anal. Chem., 86, 1816-1821.
    • (2014) Anal. Chem. , vol.86 , pp. 1816-1821
    • Huang, P.-J.J.1    Lin, J.2    Cao, J.3    Vazin, M.4    Liu, J.5
  • 26
    • 0030610237 scopus 로고    scopus 로고
    • 2+ on the RNA cleavage reaction by a small ribozyme
    • 2+ on the RNA cleavage reaction by a small ribozyme. Biochemistry, 36, 3514-3521.
    • (1997) Biochemistry , vol.36 , pp. 3514-3521
    • Ohmichi, T.1    Sugimoto, N.2
  • 27
    • 0030576946 scopus 로고    scopus 로고
    • Site-specific cleavage reaction catalyzed by leadzyme is enhanced by combined effect of lead and rare earth ions
    • Sugimoto,N. and Ohmichi,T. (1996) Site-specific cleavage reaction catalyzed by leadzyme is enhanced by combined effect of lead and rare earth ions. FEBS Lett., 393, 97-100.
    • (1996) FEBS Lett. , vol.393 , pp. 97-100
    • Sugimoto, N.1    Ohmichi, T.2
  • 28
    • 34547654293 scopus 로고    scopus 로고
    • Structural metals in the group I intron: A ribozyme with a multiple metal ion core
    • Stahley,M.R., Adams,P.L., Wang,J. and Strobel,S.A. (2007) Structural metals in the group I intron: a ribozyme with a multiple metal ion core. J. Mol. Biol., 372, 89-102.
    • (2007) J. Mol. Biol. , vol.372 , pp. 89-102
    • Stahley, M.R.1    Adams, P.L.2    Wang, J.3    Strobel, S.A.4
  • 29
    • 0030800470 scopus 로고    scopus 로고
    • A second catalytic metal ion in a group i ribozyme
    • Weinstein,L.B., Jones,B.C.N.M., Cosstick,R. and Cech,T.R. (1997) A second catalytic metal ion in a group i ribozyme. Nature, 388, 805-808.
    • (1997) Nature , vol.388 , pp. 805-808
    • Weinstein, L.B.1    Jones, B.C.N.M.2    Cosstick, R.3    Cech, T.R.4
  • 31
    • 2342522611 scopus 로고    scopus 로고
    • Distinct sites of phosphorothioate substitution interfere with folding and splicing of the anabaena group I intron
    • Lupták,A. and Doudna,J.A. (2004) Distinct sites of phosphorothioate substitution interfere with folding and splicing of the anabaena group I intron. Nucleic Acids Res., 32, 2272-2280.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 2272-2280
    • Lupták, A.1    Doudna, J.A.2
  • 32
    • 84859361211 scopus 로고    scopus 로고
    • Lanthanide ions as required cofactors for DNA catalysts
    • Dokukin,V. and Silverman,S.K. (2012) Lanthanide ions as required cofactors for DNA catalysts. Chem. Sci., 3, 1707-1714.
    • (2012) Chem. Sci. , vol.3 , pp. 1707-1714
    • Dokukin, V.1    Silverman, S.K.2
  • 33
    • 70349327390 scopus 로고    scopus 로고
    • DNA-catalyzed sequence-specific hydrolysis of DNA
    • Chandra,M., Sachdeva,A. and Silverman,S.K. (2009) DNA-catalyzed sequence-specific hydrolysis of DNA. Nat. Chem. Biol., 5, 718-720.
    • (2009) Nat. Chem. Biol. , vol.5 , pp. 718-720
    • Chandra, M.1    Sachdeva, A.2    Silverman, S.K.3
  • 34
    • 84942878626 scopus 로고    scopus 로고
    • Biochemical characterization of a lanthanide-dependent DNAzyme with normal and phosphorothioate-modified substrates
    • Vazin,M., Huang,P.-J.J., Matuszek,Ż. and Liu,J. (2015) Biochemical characterization of a lanthanide-dependent DNAzyme with normal and phosphorothioate-modified substrates. Biochemistry, 54, 6132-6138.
    • (2015) Biochemistry , vol.54 , pp. 6132-6138
    • Vazin, M.1    Huang, P.-J.J.2    Matuszek, Z.3    Liu, J.4
  • 35
    • 84902839075 scopus 로고    scopus 로고
    • 2+ collectively and individually using phosphorothioate DNAzymes
    • 2+ collectively and individually using phosphorothioate DNAzymes. Anal. Chem., 86, 5999-6005.
    • (2014) Anal. Chem. , vol.86 , pp. 5999-6005
    • Huang, P.-J.J.1    Liu, J.2
  • 36
    • 0034712097 scopus 로고    scopus 로고
    • General acid-base catalysis in the mechanism of a hepatitis delta virus ribozyme
    • Nakano,S.-I., Chadalavada,D.M. and Bevilacqua,P.C. (2000) General acid-base catalysis in the mechanism of a hepatitis delta virus ribozyme. Science, 287, 1493-1497.
    • (2000) Science , vol.287 , pp. 1493-1497
    • Nakano, S.-I.1    Chadalavada, D.M.2    Bevilacqua, P.C.3
  • 37
    • 80155168200 scopus 로고    scopus 로고
    • Charged nucleobases and their potential for RNA catalysis
    • Wilcox,J.L., Ahluwalia,A.K. and Bevilacqua,P.C. (2011) Charged nucleobases and their potential for RNA catalysis. Acc. Chem. Res., 44, 1270-1279.
    • (2011) Acc. Chem. Res. , vol.44 , pp. 1270-1279
    • Wilcox, J.L.1    Ahluwalia, A.K.2    Bevilacqua, P.C.3
  • 38
    • 67349198163 scopus 로고    scopus 로고
    • Direct measurement of the ionization state of an essential guanine in the hairpin ribozyme
    • Liu,L., Cottrell,J.W., Scott,L.G. and Fedor,M.J. (2009) Direct measurement of the ionization state of an essential guanine in the hairpin ribozyme. Nat. Chem. Biol., 5, 351-357.
    • (2009) Nat. Chem. Biol. , vol.5 , pp. 351-357
    • Liu, L.1    Cottrell, J.W.2    Scott, L.G.3    Fedor, M.J.4
  • 40
    • 0032472205 scopus 로고    scopus 로고
    • Inhibition of the hammerhead ribozyme cleavage reaction by site-specific binding of Tb(III)
    • Feig,A.L., Scott,W.G. and Uhlenbeck,O.C. (1998) Inhibition of the hammerhead ribozyme cleavage reaction by site-specific binding of Tb(III). Science, 279, 81-84.
    • (1998) Science , vol.279 , pp. 81-84
    • Feig, A.L.1    Scott, W.G.2    Uhlenbeck, O.C.3
  • 42
    • 84907158076 scopus 로고    scopus 로고
    • The group trend of lanthanides binding to DNA and DNAzymes with a complex but symmetric pattern
    • Lin,W.T.D., Huang,P.-J.J., Pautler,R. and Liu,J. (2014) The group trend of lanthanides binding to DNA and DNAzymes with a complex but symmetric pattern. Chem. Commun., 50, 11859-11862.
    • (2014) Chem. Commun. , vol.50 , pp. 11859-11862
    • Lin, W.T.D.1    Huang, P.-J.J.2    Pautler, R.3    Liu, J.4
  • 43
    • 84889011707 scopus 로고    scopus 로고
    • Time-resolved probes based on guanine/thymine-rich DNA-sensitized luminescence of terbium(III)
    • Zhang,M., Le,H.-N., Jiang,X.-Q., Yin,B.-C. and Ye,B.-C. (2013) Time-resolved probes based on guanine/thymine-rich DNA-sensitized luminescence of terbium(III). Anal. Chem., 85, 11665-11674.
    • (2013) Anal. Chem. , vol.85 , pp. 11665-11674
    • Zhang, M.1    Le, H.-N.2    Jiang, X.-Q.3    Yin, B.-C.4    Ye, B.-C.5
  • 44
    • 0032568656 scopus 로고    scopus 로고
    • An amino acid as a cofactor for a catalytic polynucleotide
    • Roth,A. and Breaker,R.R. (1998) An amino acid as a cofactor for a catalytic polynucleotide. Proc. Natl. Acad. Sci. U.S.A., 95, 6027-6031.
    • (1998) Proc. Natl. Acad. Sci. U.S.A. , vol.95 , pp. 6027-6031
    • Roth, A.1    Breaker, R.R.2
  • 45
    • 0031215119 scopus 로고    scopus 로고
    • Evidence for the metal-cofactor independence of an RNA phosphodiester-cleaving DNA enzyme
    • Geyer,C.R. and Sen,D. (1997) Evidence for the metal-cofactor independence of an RNA phosphodiester-cleaving DNA enzyme. Chem. Biol., 4, 579-593.
    • (1997) Chem. Biol. , vol.4 , pp. 579-593
    • Geyer, C.R.1    Sen, D.2
  • 46
    • 0027180473 scopus 로고
    • An RNA motif that binds ATP
    • Sassanfar,M. and Szostak,J.W. (1993) An RNA motif that binds ATP. Nature, 364, 550-553.
    • (1993) Nature , vol.364 , pp. 550-553
    • Sassanfar, M.1    Szostak, J.W.2
  • 47
    • 84868037105 scopus 로고    scopus 로고
    • Convergent evolution of adenosine aptamers spanning bacterial, human, and random sequences revealed by structure-based bioinformatics and genomic SELEX
    • Vu,M.M., Jameson,N.E., Masuda,S.J., Lin,D., Larralde-Ridaura,R. and Lupták,A. (2012) Convergent evolution of adenosine aptamers spanning bacterial, human, and random sequences revealed by structure-based bioinformatics and genomic SELEX. Chem. Biol., 19, 1247-1254.
    • (2012) Chem. Biol. , vol.19 , pp. 1247-1254
    • Vu, M.M.1    Jameson, N.E.2    Masuda, S.J.3    Lin, D.4    Larralde-Ridaura, R.5    Lupták, A.6
  • 48
    • 0035498871 scopus 로고    scopus 로고
    • In vitro evolution suggests multiple origins for the hammerhead ribozyme
    • Salehi-Ashtiani,K. and Szostak,J.W. (2001) In vitro evolution suggests multiple origins for the hammerhead ribozyme. Nature, 414, 82-84.
    • (2001) Nature , vol.414 , pp. 82-84
    • Salehi-Ashtiani, K.1    Szostak, J.W.2
  • 50
    • 77951713609 scopus 로고    scopus 로고
    • A versatile endoribonuclease mimic made of DNA: Characteristics and applications of the 8-17 RNA-cleaving DNAzyme
    • Schlosser,K. and Li,Y. (2010) A versatile endoribonuclease mimic made of DNA: Characteristics and applications of the 8-17 RNA-cleaving DNAzyme. ChemBioChem, 11, 866-879.
    • (2010) ChemBioChem , vol.11 , pp. 866-879
    • Schlosser, K.1    Li, Y.2
  • 51
    • 84948382395 scopus 로고    scopus 로고
    • Identification of the Same Na(+)-Specific DNAzyme Motif from Two In Vitro Selections Under Different Conditions
    • Torabi,S.F. and Lu,Y. (2015) Identification of the Same Na(+)-Specific DNAzyme Motif from Two In Vitro Selections Under Different Conditions. J. Mol. Evol., 81, 225-234.
    • (2015) J. Mol. Evol. , vol.81 , pp. 225-234
    • Torabi, S.F.1    Lu, Y.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.