메뉴 건너뛰기




Volumn 5, Issue 10, 1998, Pages 539-553

Peptidyl-transferase ribozymes: Trans reactions, structural characterization and ribosomal RNA-like features

Author keywords

Metal ions; Peptidyl transferase; Ribosomal RNA structure; RNA catalysis; RNA structure

Indexed keywords

CATALYSIS; CHEMICAL MODIFICATION; DIGESTION; DNA; ENZYME ACTIVITY; MUTATIONAL ANALYSIS; PEPTIDE SYNTHESIS; PEPTIDYLTRANSFERASE; RIBOSOMAL RNA; RIBOZYME; RNA; RNA REPLICATION; RNA STRUCTURE;

EID: 0032192760     PISSN: 10745521     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1074-5521(98)90113-2     Document Type: Article
Times cited : (88)

References (55)
  • 1
    • 0003017978 scopus 로고
    • Structure and mechanism of the large catalytic RNAs: Group I and group II introns and ribonuclease P
    • Gesteland, R.F. & Atkins, J.F., eds, Cold Spring Harbor Laboratory Press, Plainview, NY
    • Cech, T.R. (1993). Structure and mechanism of the large catalytic RNAs: group I and group II introns and ribonuclease P. In The RNA World. (Gesteland, R.F. & Atkins, J.F., eds) pp. 239-269, Cold Spring Harbor Laboratory Press, Plainview, NY.
    • (1993) The RNA World , pp. 239-269
    • Cech, T.R.1
  • 3
    • 0025332385 scopus 로고
    • Selection in vitro of an RNA enzyme that specifically cleaves single-stranded DNA
    • Robertson, D.L. & Joyce, G.F. (1990). Selection in vitro of an RNA enzyme that specifically cleaves single-stranded DNA. Nature 344, 467-468.
    • (1990) Nature , vol.344 , pp. 467-468
    • Robertson, D.L.1    Joyce, G.F.2
  • 4
    • 0027488624 scopus 로고
    • Isolation of new ribozymes from a large pool of random sequences
    • Bartel, D.P. & Szostak, J.W. (1993). Isolation of new ribozymes from a large pool of random sequences. Science 261, 1411-1418.
    • (1993) Science , vol.261 , pp. 1411-1418
    • Bartel, D.P.1    Szostak, J.W.2
  • 5
    • 0028124128 scopus 로고
    • In vitro evolution of new ribozymes with polynucleotide kinase activity
    • Lorsch, J.R. & Szostak, J.W. (1994). In vitro evolution of new ribozymes with polynucleotide kinase activity. Nature 371, 31-36.
    • (1994) Nature , vol.371 , pp. 31-36
    • Lorsch, J.R.1    Szostak, J.W.2
  • 6
    • 0028030688 scopus 로고
    • Expanding the scope of RNA catalysis
    • Prudent, J.R., Uno, T. & Schultz, P.G. (1994). Expanding the scope of RNA catalysis. Science 264, 1924-1927.
    • (1994) Science , vol.264 , pp. 1924-1927
    • Prudent, J.R.1    Uno, T.2    Schultz, P.G.3
  • 7
    • 0028898110 scopus 로고
    • Cleavage of an amide bond by a ribozyme
    • Dai, X-C, de Mesmaeker, A. & Joyce, G.F. (1995). Cleavage of an amide bond by a ribozyme. Science 267, 237-240.
    • (1995) Science , vol.267 , pp. 237-240
    • Dai, X.-C.1    De Mesmaeker, A.2    Joyce, G.F.3
  • 8
    • 0028911845 scopus 로고
    • In vitro evolution of a self-alkylating ribozyme
    • Wilson, C. & Szostak, J.W. (1995). In vitro evolution of a self-alkylating ribozyme. Nature 374, 777-782.
    • (1995) Nature , vol.374 , pp. 777-782
    • Wilson, C.1    Szostak, J.W.2
  • 9
    • 0029832218 scopus 로고    scopus 로고
    • RNA-catalyzed RNA polymerization using nucleoside triphosphates
    • Ekland, E.H. & Bartel, D.P. (1996). RNA-catalyzed RNA polymerization using nucleoside triphosphates. Nature 382, 373-376.
    • (1996) Nature , vol.382 , pp. 373-376
    • Ekland, E.H.1    Bartel, D.P.2
  • 10
    • 0008451711 scopus 로고    scopus 로고
    • Porphyrin metalation catalyzed by a small RNA molecule
    • Conn, M.M., Prudent, J.R. & Schultz, P.G. (1996). Porphyrin metalation catalyzed by a small RNA molecule. J. Am. Chem. Soc. 118, 7012-7013.
    • (1996) J. Am. Chem. Soc. , vol.118 , pp. 7012-7013
    • Conn, M.M.1    Prudent, J.R.2    Schultz, P.G.3
  • 11
    • 0029903899 scopus 로고    scopus 로고
    • In vitro selection of a novel catalytic RNA: Characterization of a sulfur alkylation reaction and interaction with a small peptide
    • Wecker, M., Smith, D. & Gold, L. (1996). In vitro selection of a novel catalytic RNA: characterization of a sulfur alkylation reaction and interaction with a small peptide. RNA 2, 982-994.
    • (1996) RNA , vol.2 , pp. 982-994
    • Wecker, M.1    Smith, D.2    Gold, L.3
  • 12
    • 0030963855 scopus 로고    scopus 로고
    • RNA-catalyzed carbon-carbon bond formation
    • Tarasow, T.M., Tarasow, S.L. & Eaton, B.E. (1997). RNA-catalyzed carbon-carbon bond formation. Nature 389, 54-57.
    • (1997) Nature , vol.389 , pp. 54-57
    • Tarasow, T.M.1    Tarasow, S.L.2    Eaton, B.E.3
  • 13
  • 14
    • 0029956108 scopus 로고    scopus 로고
    • Ribozyme-catalyzed amino-acid transfer reactions
    • Lohse, P.A. & Szostak, J.W. (1996). Ribozyme-catalyzed amino-acid transfer reactions. Nature 381, 442-444.
    • (1996) Nature , vol.381 , pp. 442-444
    • Lohse, P.A.1    Szostak, J.W.2
  • 15
    • 0031882441 scopus 로고    scopus 로고
    • A novel ribozyme with ester transferase activity
    • Jenne, A. & Famulok, M. (1998). A novel ribozyme with ester transferase activity. Chem. Biol. 5, 23-34.
    • (1998) Chem. Biol. , vol.5 , pp. 23-34
    • Jenne, A.1    Famulok, M.2
  • 16
    • 0030688863 scopus 로고    scopus 로고
    • Peptide bond formation by in vitro selected ribozymes
    • Zhang, B. & Cech, T.R. (1997). Peptide bond formation by in vitro selected ribozymes. Nature 390, 96-100.
    • (1997) Nature , vol.390 , pp. 96-100
    • Zhang, B.1    Cech, T.R.2
  • 17
    • 0019856947 scopus 로고
    • In vitro splicing of the ribosomal RNA precursor of Tetrahymena: Involvement of a guanosine nucleotide in the excision of the intervening sequence
    • Cech, T., Zaug, A. & Grabowski, P. (1981). In vitro splicing of the ribosomal RNA precursor of Tetrahymena: involvement of a guanosine nucleotide in the excision of the intervening sequence. Cell 27, 487-496.
    • (1981) Cell , vol.27 , pp. 487-496
    • Cech, T.1    Zaug, A.2    Grabowski, P.3
  • 18
    • 0021013526 scopus 로고
    • The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme
    • Guerrier-Takada, C., Gardiner, K., Marsh, T., Pace, N. & Altman, S. (1983). The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme. Cell, 35, 849-857.
    • (1983) Cell , vol.35 , pp. 849-857
    • Guerrier-Takada, C.1    Gardiner, K.2    Marsh, T.3    Pace, N.4    Altman, S.5
  • 19
    • 0024476917 scopus 로고
    • RNA evolution and the origins of life
    • Joyce, G.F. (1989). RNA evolution and the origins of life. Nature 338, 217-224.
    • (1989) Nature , vol.338 , pp. 217-224
    • Joyce, G.F.1
  • 22
    • 0014378880 scopus 로고
    • The origin of the genetic code
    • Crick, F.H.C. (1968). The origin of the genetic code. J. Mol. Biol. 38, 367-379.
    • (1968) J. Mol. Biol. , vol.38 , pp. 367-379
    • Crick, F.H.C.1
  • 23
    • 0029360503 scopus 로고
    • Re-creating the RNA world
    • Ellington, A.D. & Hirao, I. (1995). Re-creating the RNA world. Curr. Biol. 5, 1017-1022.
    • (1995) Curr. Biol. , vol.5 , pp. 1017-1022
    • Ellington, A.D.1    Hirao, I.2
  • 24
    • 0030250840 scopus 로고    scopus 로고
    • Ribozymes: Aiming at RNA replication and protein synthesis
    • Hager, A., Pollard, J.D. & Szostak, J.W. (1996). Ribozymes: aiming at RNA replication and protein synthesis. Chem. Biol. 3, 717-725.
    • (1996) Chem. Biol. , vol.3 , pp. 717-725
    • Hager, A.1    Pollard, J.D.2    Szostak, J.W.3
  • 25
    • 0003173754 scopus 로고
    • On the origin of the ribosome: Coevolution of subdomains of tRNA and rRNA
    • Gesteland, R.F. & Atkins, J.F., eds, Cold Spring Harbor Laboratory Press, Plainview, NY
    • Noller, H.F. (1993). On the origin of the ribosome: coevolution of subdomains of tRNA and rRNA. In The RNA World. (Gesteland, R.F. & Atkins, J.F., eds) pp.137-156, Cold Spring Harbor Laboratory Press, Plainview, NY.
    • (1993) The RNA World , pp. 137-156
    • Noller, H.F.1
  • 26
    • 0026639881 scopus 로고
    • Unusual resistance of peptidyl-transferase to protein extraction procedures
    • Noller, H.F., Hoffarth, V. & Zimniak, L. (1992). Unusual resistance of peptidyl-transferase to protein extraction procedures. Science 256, 1416-1419.
    • (1992) Science , vol.256 , pp. 1416-1419
    • Noller, H.F.1    Hoffarth, V.2    Zimniak, L.3
  • 28
    • 0014430579 scopus 로고
    • Cupric-ion catalysis in hydrolysis of aminoacyl-tRNA
    • Schofield, P. & Zamecnik, P.C. (1968). Cupric-ion catalysis in hydrolysis of aminoacyl-tRNA. Biochim. Biophys. Acta 155, 410-416.
    • (1968) Biochim. Biophys. Acta , vol.155 , pp. 410-416
    • Schofield, P.1    Zamecnik, P.C.2
  • 29
    • 0004286966 scopus 로고    scopus 로고
    • An updated recursive algorithm for RNA secondary structure prediction with improved free energy parameters
    • Mathews, D.H., Andre, T.C., Kim, J., Turner, D.H. & Zuker, M. (1998). An updated recursive algorithm for RNA secondary structure prediction with improved free energy parameters. Am. Chem. Soc. Symp. Ser. 682, 246-257.
    • (1998) Am. Chem. Soc. Symp. Ser. , vol.682 , pp. 246-257
    • Mathews, D.H.1    Andre, T.C.2    Kim, J.3    Turner, D.H.4    Zuker, M.5
  • 30
    • 0031906988 scopus 로고    scopus 로고
    • Possible involvement of Escherichia coli 23S ribosomal RNA in peptide bond formation
    • Nitta, I., Ueda, T. & Watanabe, K. (1998). Possible involvement of Escherichia coli 23S ribosomal RNA in peptide bond formation. RNA 4, 257-267.
    • (1998) RNA , vol.4 , pp. 257-267
    • Nitta, I.1    Ueda, T.2    Watanabe, K.3
  • 31
    • 0032502997 scopus 로고    scopus 로고
    • Ribosome-catalyzed peptide-bond formation with A-site substrate covalently linked to 23S ribosomal RNA
    • Green, R., Switzer, C. & Noller, H.F. (1998). Ribosome-catalyzed peptide-bond formation with A-site substrate covalently linked to 23S ribosomal RNA. Science 280, 286-289.
    • (1998) Science , vol.280 , pp. 286-289
    • Green, R.1    Switzer, C.2    Noller, H.F.3
  • 32
    • 0031942486 scopus 로고    scopus 로고
    • Mutational analysis of the donor substrate binding site of the ribosomal peptidyl-transferase center
    • Saarma, U., Spahn, C.M.T., Nierhaus, K.H. & Remme, J. (1998). Mutational analysis of the donor substrate binding site of the ribosomal peptidyl-transferase center. RNA 4, 189-194.
    • (1998) RNA , vol.4 , pp. 189-194
    • Saarma, U.1    Spahn, C.M.T.2    Nierhaus, K.H.3    Remme, J.4
  • 33
    • 0024334898 scopus 로고
    • Interaction of tRNA with 23S rRNA in the ribosomal A, P, and E sites
    • Moazed, D. & Noller, H.F. (1989). Interaction of tRNA with 23S rRNA in the ribosomal A, P, and E sites. Cell 57, 585-597.
    • (1989) Cell , vol.57 , pp. 585-597
    • Moazed, D.1    Noller, H.F.2
  • 34
    • 0028924641 scopus 로고
    • Fine structure of the peptidyl-transferase center on 23S rRNAs deduced from chemical probing of antibiotic-ribosome complexes
    • Rodriguez-Fonseca, C., Amils, R. & Garrett, R.A. (1995). Fine structure of the peptidyl-transferase center on 23S rRNAs deduced from chemical probing of antibiotic-ribosome complexes. J. Mol. Biol. 247, 224-235.
    • (1995) J. Mol. Biol. , vol.247 , pp. 224-235
    • Rodriguez-Fonseca, C.1    Amils, R.2    Garrett, R.A.3
  • 35
    • 0023821349 scopus 로고
    • 3H]-p-azidopuromycin photo affinity labeling of Escherichia coli ribosomes: Evidence for site-specific interaction at U-2504 and G-2502 in domain V of 23S ribosomal RNA
    • 3H]-p-azidopuromycin photo affinity labeling of Escherichia coli ribosomes: evidence for site-specific interaction at U-2504 and G-2502 in domain V of 23S ribosomal RNA. Biochemistry 27, 3983-3990.
    • (1988) Biochemistry , vol.27 , pp. 3983-3990
    • Hall, C.C.1    Johnson, D.2    Cooperman, B.S.3
  • 36
    • 0024458904 scopus 로고
    • Intermediate states in the movement of transfer RNA in the ribosome
    • Moazed, D. & Noller, H.F. (1989). Intermediate states in the movement of transfer RNA in the ribosome. Nature 342, 142-148.
    • (1989) Nature , vol.342 , pp. 142-148
    • Moazed, D.1    Noller, H.F.2
  • 37
    • 0024227741 scopus 로고
    • Photo-affinity labeling at the peptidyl-transferase center reveals two different positions for the A-and P-sites in domain V of 23S rRNA
    • Stern, G., Kuechler, E. & Barta, A. (1988). Photo-affinity labeling at the peptidyl-transferase center reveals two different positions for the A-and P-sites in domain V of 23S rRNA. EMBO J. 7, 3949-3955.
    • (1988) EMBO J. , vol.7 , pp. 3949-3955
    • Stern, G.1    Kuechler, E.2    Barta, A.3
  • 38
    • 0000708390 scopus 로고
    • The use of puromycin analogs and related compounds to probe the active center of peptidyl-transferase on Escherichia coli ribosomes
    • Symons, R.H., Harris, R.J., Greenwell, P., Eckermann, D.J. & Vanin, E.F. (1978). The use of puromycin analogs and related compounds to probe the active center of peptidyl-transferase on Escherichia coli ribosomes. Bioorg. Chem. (Suppl.) 4, 409-436.
    • (1978) Bioorg. Chem. (Suppl.) , vol.4 , pp. 409-436
    • Symons, R.H.1    Harris, R.J.2    Greenwell, P.3    Eckermann, D.J.4    Vanin, E.F.5
  • 39
    • 0023604799 scopus 로고
    • Chloramphenicol, erythromycin, carbomycin and vernamycin B protect overlapping sites in the peptidyl-transferase region of 23S rRNA
    • Moazed, D. & Noller, H.F. (1987). Chloramphenicol, erythromycin, carbomycin and vernamycin B protect overlapping sites in the peptidyl-transferase region of 23S rRNA. Biochimie 69, 879-884.
    • (1987) Biochimie , vol.69 , pp. 879-884
    • Moazed, D.1    Noller, H.F.2
  • 40
    • 0025988140 scopus 로고
    • Binding sites of the antibiotics pactamycin and celesticetin on rRNAs
    • Egebjerg, J. & Garrett, R.A. (1991). Binding sites of the antibiotics pactamycin and celesticetin on rRNAs. Biochimie 73, 1145-1149.
    • (1991) Biochimie , vol.73 , pp. 1145-1149
    • Egebjerg, J.1    Garrett, R.A.2
  • 41
    • 0026660662 scopus 로고
    • Interaction of the antibiotics clindamycin and lincomycin with Escherichia coli 23S rRNA
    • Douthwaite, S. (1992). Interaction of the antibiotics clindamycin and lincomycin with Escherichia coli 23S rRNA. Nucleic Acids Res. 20, 4717-4720.
    • (1992) Nucleic Acids Res. , vol.20 , pp. 4717-4720
    • Douthwaite, S.1
  • 43
    • 0030970582 scopus 로고    scopus 로고
    • 23S rRNA similarity from selection for peptidyl-transferase mimicry
    • Welch, M., Majerfeld, I. & Yarus, M. (1997). 23S rRNA similarity from selection for peptidyl-transferase mimicry. Biochemistry 36, 6614-6623.
    • (1997) Biochemistry , vol.36 , pp. 6614-6623
    • Welch, M.1    Majerfeld, I.2    Yarus, M.3
  • 44
    • 0027394389 scopus 로고
    • mRNA splicing and autocatalytic introns: Distant cousins or the products of chemical determinism?
    • Weiner, A.M. (1993). mRNA splicing and autocatalytic introns: distant cousins or the products of chemical determinism? Cell 72, 161-164.
    • (1993) Cell , vol.72 , pp. 161-164
    • Weiner, A.M.1
  • 45
    • 0021241894 scopus 로고
    • Specific interaction between the self-splicing RNA of Tetrahymena and its guanosine substrate: Implications for biological catalysis by RNA
    • Bass, B.L. & Cech, T.R. (1984). Specific interaction between the self-splicing RNA of Tetrahymena and its guanosine substrate: implications for biological catalysis by RNA. Nature 308, 820-826.
    • (1984) Nature , vol.308 , pp. 820-826
    • Bass, B.L.1    Cech, T.R.2
  • 46
    • 0025149015 scopus 로고
    • Catalytic of RNA cleavage by the Tetrahymena thermophila ribozyme. 2. Kinetic description of the reaction of an RNA substrate that forms a mismatch at the active site
    • Herschlag, D. & Cech, T.R. (1990). Catalytic of RNA cleavage by the Tetrahymena thermophila ribozyme. 2. Kinetic description of the reaction of an RNA substrate that forms a mismatch at the active site. Biochemistry 29, 10172-10180.
    • (1990) Biochemistry , vol.29 , pp. 10172-10180
    • Herschlag, D.1    Cech, T.R.2
  • 47
    • 0027180473 scopus 로고
    • An RNA motif that binds ATP
    • Sassanfar, M. & 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
  • 48
    • 0029924638 scopus 로고    scopus 로고
    • RNA aptamers that bind L-arginine with sub-micromolar dissociation constants and high enantioselectivity
    • Gerger, A., Burgstaller, P., von der Eltz, H., Roeder, A. & Famulok, M. (1996). RNA aptamers that bind L-arginine with sub-micromolar dissociation constants and high enantioselectivity. Nucleic Acids Res. 24, 1029-1036.
    • (1996) Nucleic Acids Res. , vol.24 , pp. 1029-1036
    • Gerger, A.1    Burgstaller, P.2    Von Der Eltz, H.3    Roeder, A.4    Famulok, M.5
  • 49
    • 0027398505 scopus 로고
    • Metal-ion catalysis in the Tetrahymena ribozyme reaction
    • Piccirilli, J.A., Vyle, J.S., Caruthers, M.H. & Cech, T.R. (1993). Metal-ion catalysis in the Tetrahymena ribozyme reaction. Nature 361, 85-88.
    • (1993) Nature , vol.361 , pp. 85-88
    • Piccirilli, J.A.1    Vyle, J.S.2    Caruthers, M.H.3    Cech, T.R.4
  • 50
    • 0027183545 scopus 로고
    • Ribozymes: A distinct class of metalloenzymes
    • Pyle, A.M. (1993). Ribozymes: a distinct class of metalloenzymes. Science 261, 709-714.
    • (1993) Science , vol.261 , pp. 709-714
    • Pyle, A.M.1
  • 51
    • 0030929889 scopus 로고    scopus 로고
    • A magnesium ion core at the heart of a ribozyme domain
    • Cate, J.H., Hanna, R.L. & Doudna, J.A. (1997). A magnesium ion core at the heart of a ribozyme domain. Nat. Struct. Biol. 4, 553-558.
    • (1997) Nat. Struct. Biol. , vol.4 , pp. 553-558
    • Cate, J.H.1    Hanna, R.L.2    Doudna, J.A.3
  • 52
    • 0025963132 scopus 로고
    • Visualizing the higher order folding of a catalytic RNA molecule
    • Celander, D.W. & Cech, T.R. (1991). Visualizing the higher order folding of a catalytic RNA molecule. Science 251, 401-407.
    • (1991) Science , vol.251 , pp. 401-407
    • Celander, D.W.1    Cech, T.R.2
  • 53
    • 0025998488 scopus 로고
    • Role of divalent metal ions in the hammerhead RNA cleavage reaction
    • Dahm, S.C. & Uhlenbeck, O.C. (1991). Role of divalent metal ions in the hammerhead RNA cleavage reaction. Biochemistry 30, 9464-9469.
    • (1991) Biochemistry , vol.30 , pp. 9464-9469
    • Dahm, S.C.1    Uhlenbeck, O.C.2
  • 54
    • 0014352679 scopus 로고
    • Ribosome-catalyzed peptidyl transfer: Effects of cations and pH value
    • Maden, B.E.H. & Monro, R.E. (1968). Ribosome-catalyzed peptidyl transfer: effects of cations and pH value. Eur. J. Biochem. 6, 309-316.
    • (1968) Eur. J. Biochem. , vol.6 , pp. 309-316
    • Maden, B.E.H.1    Monro, R.E.2
  • 55
    • 0026774180 scopus 로고
    • New horizons for RNA catalysis
    • Pace, N.R. (1992). New horizons for RNA catalysis. Science 256, 1402-1403.
    • (1992) Science , vol.256 , pp. 1402-1403
    • Pace, N.R.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.