메뉴 건너뛰기




Volumn 278, Issue 6, 2007, Pages 677-687

Selection for intragenic suppressors of lethal 23S rRNA mutations in Escherichia coli identifies residues important for ribosome assembly and function

Author keywords

Decoding fidelity; Inter subunit bridge; Ribosome; rRNA lethal mutation; Suppressor

Indexed keywords

RIBOSOME RNA; RNA; TRANSFER RNA;

EID: 36049038922     PISSN: 16174615     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00438-007-0284-3     Document Type: Article
Times cited : (6)

References (48)
  • 1
    • 0033515041 scopus 로고    scopus 로고
    • An Escherichia coli strain with all chromosomal rRNA operons inactivated: Complete exchange of rRNA genes between bacteria
    • Asai T, Zaporojets D, Squires C, Squires CL (1999a) An Escherichia coli strain with all chromosomal rRNA operons inactivated: complete exchange of rRNA genes between bacteria. Proc Natl Acad Sci U S A 96:1971-1976
    • (1999) Proc Natl Acad Sci U S a , vol.96 , pp. 1971-1976
    • Asai, T.1    Zaporojets, D.2    Squires, C.3    Squires, C.L.4
  • 2
    • 0033011939 scopus 로고    scopus 로고
    • Construction and initial characterization of Escherichia coli strains with few or no intact chromosomal rRNA operons
    • Asai T, Condon C, Voulgaris J, Zaporojets D, Shen B, Al-Omar M, Squires C, Squires CL (1999b) Construction and initial characterization of Escherichia coli strains with few or no intact chromosomal rRNA operons. J Bacteriol 181:3803-3809
    • (1999) J Bacteriol , vol.181 , pp. 3803-3809
    • Asai, T.1    Condon, C.2    Voulgaris, J.3    Zaporojets, D.4    Shen, B.5    Al-Omar, M.6    Squires, C.7    Squires, C.L.8
  • 3
    • 0034637111 scopus 로고    scopus 로고
    • The complete atomic structure of the large ribosomal subunit at 2.4 a resolution
    • Ban N, Nissen P, Hansen J, Moore PB, Steitz TA (2000) The complete atomic structure of the large ribosomal subunit at 2.4 a resolution. Science 289:905-920
    • (2000) Science , vol.289 , pp. 905-920
    • Ban, N.1    Nissen, P.2    Hansen, J.3    Moore, P.B.4    Steitz, T.A.5
  • 4
    • 0024116796 scopus 로고
    • The binding site for ribosomal protein L2 within 23S ribosomal RNA of Escherichia coli
    • Beauclerk AA, Cundliffe E (1988) The binding site for ribosomal protein L2 within 23S ribosomal RNA of Escherichia coli. EMBO J 7:3589-3594
    • (1988) EMBO J , vol.7 , pp. 3589-3594
    • Beauclerk, A.A.1    Cundliffe, E.2
  • 5
    • 0019513663 scopus 로고
    • Gene organization and primary structure of a ribosomal RNA operon from Escherichia coli
    • Brosius J, Dull TJ, Sleeter DD, Noller HF (1981) Gene organization and primary structure of a ribosomal RNA operon from Escherichia coli. J Mol Biol 148:107-127
    • (1981) J Mol Biol , vol.148 , pp. 107-127
    • Brosius, J.1    Dull, T.J.2    Sleeter, D.D.3    Noller, H.F.4
  • 7
    • 0030006310 scopus 로고    scopus 로고
    • The translational function of nucleotide C1054 in the small subunit rRNA is conserved throughout evolution: Genetic evidence in yeast
    • Chernoff YO, Newnam GP, Liebman SW (1996) The translational function of nucleotide C1054 in the small subunit rRNA is conserved throughout evolution: genetic evidence in yeast. Proc Natl Acad Sci USA 93:2517-2522
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 2517-2522
    • Chernoff, Y.O.1    Newnam, G.P.2    Liebman, S.W.3
  • 8
    • 33644851066 scopus 로고    scopus 로고
    • Changes produced by bound tryptophan in the ribosome peptidyl transferase center in response to TnaC, a nascent leader peptide
    • Cruz-Vera LR, Gong M, Yanofsky C (2006) Changes produced by bound tryptophan in the ribosome peptidyl transferase center in response to TnaC, a nascent leader peptide. Proc Natl Acad Sci USA 103:3598-3603
    • (2006) Proc Natl Acad Sci USA , vol.103 , pp. 3598-3603
    • Cruz-Vera, L.R.1    Gong, M.2    Yanofsky, C.3
  • 9
    • 34247868068 scopus 로고    scopus 로고
    • Ribosomal features essential for tna operon induction: Tryptophan binding at the peptidyl transferase center
    • Cruz-Vera LR, New A, Squires C, Yanofsky C (2007) Ribosomal features essential for tna operon induction: tryptophan binding at the peptidyl transferase center. J Bacteriol 189:3140-3146
    • (2007) J Bacteriol , vol.189 , pp. 3140-3146
    • Cruz-Vera, L.R.1    New, A.2    Squires, C.3    Yanofsky, C.4
  • 11
    • 0022330611 scopus 로고
    • Evidence for functional interaction between domains II and V of 23S ribosomal RNA from an erythromycin-resistant mutant
    • Douthwaite S, Prince JB, Noller HF (1985) Evidence for functional interaction between domains II and V of 23S ribosomal RNA from an erythromycin-resistant mutant. Proc Natl Acad Sci USA 82:8330-8334
    • (1985) Proc Natl Acad Sci USA , vol.82 , pp. 8330-8334
    • Douthwaite, S.1    Prince, J.B.2    Noller, H.F.3
  • 14
    • 21844446585 scopus 로고    scopus 로고
    • Mutational analysis of 16S and 23S rRNA genes of Thermus thermophilus
    • Gregory ST, Carr JF, Rodriguez-Correa D, Dahlberg AE (2005) Mutational analysis of 16S and 23S rRNA genes of Thermus thermophilus. J Bacteriol 187:4804-4812
    • (2005) J Bacteriol , vol.187 , pp. 4804-4812
    • Gregory, S.T.1    Carr, J.F.2    Rodriguez-Correa, D.3    Dahlberg, A.E.4
  • 15
    • 0023684064 scopus 로고
    • A general method of in vitro preparation and specific mutagenesis of DNA fragments: Study of protein and DNA interactions
    • Higuchi R, Krummel B, Saiki RK (1988) A general method of in vitro preparation and specific mutagenesis of DNA fragments: study of protein and DNA interactions. Nucleic Acids Res 16:7351-7367
    • (1988) Nucleic Acids Res , vol.16 , pp. 7351-7367
    • Higuchi, R.1    Krummel, B.2    Saiki, R.K.3
  • 17
    • 33745205638 scopus 로고    scopus 로고
    • Conserved loop sequence of helix 69 in Escherichia coli 23 S rRNA is involved in A-site tRNA binding and translational fidelity
    • Hirabayashi N, Sato NS, Suzuki T (2006) Conserved loop sequence of helix 69 in Escherichia coli 23 S rRNA is involved in A-site tRNA binding and translational fidelity. J Biol Chem 281:17203-17211
    • (2006) J Biol Chem , vol.281 , pp. 17203-17211
    • Hirabayashi, N.1    Sato, N.S.2    Suzuki, T.3
  • 18
    • 0033231562 scopus 로고    scopus 로고
    • Base-pairing between 23S rRNA and tRNA in the ribosomal a site
    • Kim DF, Green R (1999) Base-pairing between 23S rRNA and tRNA in the ribosomal A site. Mol Cell 4:859-864
    • (1999) Mol Cell , vol.4 , pp. 859-864
    • Kim, D.F.1    Green, R.2
  • 19
    • 34547619912 scopus 로고    scopus 로고
    • Functional genetic selection of Helix 66 in Escherichia coli 23S rRNA identified the eukaryotic-binding sequence for ribosomal protein L2
    • Kitahara K, Kajiura A, Sato NS, Suzuki T (2007) Functional genetic selection of Helix 66 in Escherichia coli 23S rRNA identified the eukaryotic-binding sequence for ribosomal protein L2. Nucleic Acids Res 35:4018-4029
    • (2007) Nucleic Acids Res , vol.35 , pp. 4018-4029
    • Kitahara, K.1    Kajiura, A.2    Sato, N.S.3    Suzuki, T.4
  • 20
    • 33748582906 scopus 로고    scopus 로고
    • Crystal structure of a 70S ribosome-tRNA complex reveals functional interactions and rearrangements
    • Korostelev A, Trakhanov S, Laurberg M, Noller HF (2006) Crystal structure of a 70S ribosome-tRNA complex reveals functional interactions and rearrangements. Cell 126:1065-1077
    • (2006) Cell , vol.126 , pp. 1065-1077
    • Korostelev, A.1    Trakhanov, S.2    Laurberg, M.3    Noller, H.F.4
  • 21
    • 0025888264 scopus 로고
    • Efficient site-directed mutagenesis using uracil-containing DNA
    • Kunkel TA, Bebenek K, McClary J (1991) Efficient site-directed mutagenesis using uracil-containing DNA. Methods Enzymol 204:125-139
    • (1991) Methods Enzymol , vol.204 , pp. 125-139
    • Kunkel, T.A.1    Bebenek, K.2    McClary, J.3
  • 22
    • 0029905958 scopus 로고    scopus 로고
    • Genetic analysis of the Shine-Dalgarno interaction: Selection of alternative functional mRNA-rRNA combinations
    • Lee K, Holland-Staley CA, Cunningham PR (1996) Genetic analysis of the Shine-Dalgarno interaction: selection of alternative functional mRNA-rRNA combinations. RNA 2:1270-1285
    • (1996) RNA , vol.2 , pp. 1270-1285
    • Lee, K.1    Holland-Staley, C.A.2    Cunningham, P.R.3
  • 23
    • 33749565152 scopus 로고    scopus 로고
    • Mutations in the intersubunit bridge regions of 23S rRNA
    • Liiv A, O'Connor M (2006) Mutations in the intersubunit bridge regions of 23S rRNA. J Biol Chem 281:29850-29862
    • (2006) J Biol Chem , vol.281 , pp. 29850-29862
    • Liiv, A.1    O'Connor, M.2
  • 24
    • 0033534198 scopus 로고    scopus 로고
    • Nucleotides in 23S rRNA protected by the association of 30S and 50S ribosomal subunits
    • Merryman C, Moazed D, Daubresse G, Noller HF (1998) Nucleotides in 23S rRNA protected by the association of 30S and 50S ribosomal subunits. J Mol Biol 285:107-113
    • (1998) J Mol Biol , vol.285 , pp. 107-113
    • Merryman, C.1    Moazed, D.2    Daubresse, G.3    Noller, H.F.4
  • 25
    • 0003842951 scopus 로고
    • Cold Spring Harbor Laboratory Press Cold Spring Harbor, New York
    • Miller JH (1991) A short course in bacterial genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York
    • (1991) A Short Course in Bacterial Genetics
    • Miller, J.H.1
  • 26
    • 0027375408 scopus 로고
    • Mutations at U2555, a tRNA-protected base in 23S rRNA, affect translational fidelity
    • O'Connor M, Dahlberg AE (1993) Mutations at U2555, a tRNA-protected base in 23S rRNA, affect translational fidelity. Proc Natl Acad Sci USA 90:9214-9218
    • (1993) Proc Natl Acad Sci USA , vol.90 , pp. 9214-9218
    • O'Connor, M.1    Dahlberg, A.E.2
  • 27
    • 0029617892 scopus 로고
    • The involvement of two distinct regions of 23S ribosomal RNA in tRNA selection
    • O'Connor M, Dahlberg AE (1995) The involvement of two distinct regions of 23S ribosomal RNA in tRNA selection. J Mol Biol 254:838-847
    • (1995) J Mol Biol , vol.254 , pp. 838-847
    • O'Connor, M.1    Dahlberg, A.E.2
  • 28
    • 0029898625 scopus 로고    scopus 로고
    • The influence of base identity and base pairing on the function of the alpha-sarcin loop of 23S rRNA
    • O'Connor M, Dahlberg AE (1996) The influence of base identity and base pairing on the function of the alpha-sarcin loop of 23S rRNA. Nucleic Acids Res 24:2701-2705
    • (1996) Nucleic Acids Res , vol.24 , pp. 2701-2705
    • O'Connor, M.1    Dahlberg, A.E.2
  • 29
    • 0035253420 scopus 로고    scopus 로고
    • Mutagenesis of the peptidyltransferase center of 23S rRNA: The invariant U2449 is dispensable
    • O'Connor M, Lee WM, Mankad A, Squires CL, Dahlberg AE (2001) Mutagenesis of the peptidyltransferase center of 23S rRNA: the invariant U2449 is dispensable. Nucleic Acids Res 29:710-715
    • (2001) Nucleic Acids Res , vol.29 , pp. 710-715
    • O'Connor, M.1    Lee, W.M.2    Mankad, A.3    Squires, C.L.4    Dahlberg, A.E.5
  • 30
    • 31344478504 scopus 로고    scopus 로고
    • The ribosomal peptidyl transferase center: Structure, function, evolution, inhibition
    • Polacek N, Mankin AS (2005) The ribosomal peptidyl transferase center: structure, function, evolution, inhibition. Crit Rev Biochem Mol Biol 40:285-311
    • (2005) Crit Rev Biochem Mol Biol , vol.40 , pp. 285-311
    • Polacek, N.1    Mankin, A.S.2
  • 31
    • 0029011424 scopus 로고
    • Mapping important nucleotides in the peptidyl transferase centre of 23S rRNA using a random mutagenesis approach
    • Porse BT, Garrett RA (1995) Mapping important nucleotides in the peptidyl transferase centre of 23S rRNA using a random mutagenesis approach. J Mol Biol 249:1-10
    • (1995) J Mol Biol , vol.249 , pp. 1-10
    • Porse, B.T.1    Garrett, R.A.2
  • 32
    • 0025012472 scopus 로고
    • Dominant lethal mutations in a conserved loop in 16S rRNA
    • Powers T, Noller HF (1990) Dominant lethal mutations in a conserved loop in 16S rRNA. Proc Natl Acad Sci USA 87:1042-1046
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 1042-1046
    • Powers, T.1    Noller, H.F.2
  • 33
    • 33646441026 scopus 로고    scopus 로고
    • Functional epitopes at the ribosome subunit interface
    • Rackham O, Wang K, Chin JW (2006) Functional epitopes at the ribosome subunit interface. Nat Chem Biol 2:254-258
    • (2006) Nat Chem Biol , vol.2 , pp. 254-258
    • Rackham, O.1    Wang, K.2    Chin, J.W.3
  • 34
    • 0029025768 scopus 로고
    • Pseudoknot in domain II of 23 S rRNA is essential for ribosome function
    • Rosendahl G, Hansen LH, Douthwaite S (1995) Pseudoknot in domain II of 23 S rRNA is essential for ribosome function. J Mol Biol 249:59-68
    • (1995) J Mol Biol , vol.249 , pp. 59-68
    • Rosendahl, G.1    Hansen, L.H.2    Douthwaite, S.3
  • 35
    • 33750359363 scopus 로고    scopus 로고
    • Comprehensive genetic selection revealed essential bases in the peptidyl-transferase center
    • Sato NS, Hirabayashi N, Agmon I, Yonath A, Suzuki T (2006) Comprehensive genetic selection revealed essential bases in the peptidyl-transferase center. Proc Natl Acad Sci USA 103:15386-15391
    • (2006) Proc Natl Acad Sci USA , vol.103 , pp. 15386-15391
    • Sato, N.S.1    Hirabayashi, N.2    Agmon, I.3    Yonath, A.4    Suzuki, T.5
  • 38
    • 0024271795 scopus 로고
    • Antibiotic resistance mutations in ribosomal RNA genes of Escherichia coli
    • Sigmund CD, Ettayebi M, Borden A, Morgan EA (1988) Antibiotic resistance mutations in ribosomal RNA genes of Escherichia coli. Methods Enzymol 164:673-690
    • (1988) Methods Enzymol , vol.164 , pp. 673-690
    • Sigmund, C.D.1    Ettayebi, M.2    Borden, A.3    Morgan, E.A.4
  • 39
    • 0035019946 scopus 로고    scopus 로고
    • A short fragment of 23S rRNA containing the binding sites for two ribosomal proteins, L24 and L4, is a key element for rRNA folding during early assembly
    • Stelzl U, Nierhaus KH (2001) A short fragment of 23S rRNA containing the binding sites for two ribosomal proteins, L24 and L4, is a key element for rRNA folding during early assembly. RNA 7:598-609
    • (2001) RNA , vol.7 , pp. 598-609
    • Stelzl, U.1    Nierhaus, K.H.2
  • 40
    • 0034712733 scopus 로고    scopus 로고
    • Selecting rRNA binding sites for the ribosomal proteins L4 and L6 from randomly fragmented rRNA: Application of a method called SERF
    • Stelzl U, Spahn CM, Nierhaus KH (2000) Selecting rRNA binding sites for the ribosomal proteins L4 and L6 from randomly fragmented rRNA: application of a method called SERF. Proc Natl Acad Sci USA 97:4597-4602
    • (2000) Proc Natl Acad Sci USA , vol.97 , pp. 4597-4602
    • Stelzl, U.1    Spahn, C.M.2    Nierhaus, K.H.3
  • 42
    • 0034903227 scopus 로고    scopus 로고
    • Staphylococcus aureus domain V functions in Escherichia coli ribosomes provided a conserved interaction with domain IV is restored
    • Thompson J, Tapprich WE, Munger C, Dahlberg AE (2001b) Staphylococcus aureus domain V functions in Escherichia coli ribosomes provided a conserved interaction with domain IV is restored. RNA 7:1076-1083
    • (2001) RNA , vol.7 , pp. 1076-1083
    • Thompson, J.1    Tapprich, W.E.2    Munger, C.3    Dahlberg, A.E.4
  • 44
    • 27844590293 scopus 로고    scopus 로고
    • Gene replacement in Haloarcula marismortui: Construction of a strain with two of its three chromosomal rRNA operons deleted.
    • Tu D, Blaha G, Moore PB, Steitz TA (2005) Gene replacement in Haloarcula marismortui: construction of a strain with two of its three chromosomal rRNA operons deleted. Extremophiles 9:427-435
    • (2005) Extremophiles , vol.9 , pp. 427-435
    • Tu, D.1    Blaha, G.2    Moore, P.B.3    Steitz, T.A.4
  • 45
    • 0023587832 scopus 로고
    • A plasmid-coded and site-directed mutation in Escherichia coli 23S RNA that confers resistance to erythromycin: Implications for the mechanism of action of erythromycin
    • Vester B, Garrett RA (1987) A plasmid-coded and site-directed mutation in Escherichia coli 23S RNA that confers resistance to erythromycin: implications for the mechanism of action of erythromycin. Biochimie 69:891-900
    • (1987) Biochimie , vol.69 , pp. 891-900
    • Vester, B.1    Garrett, R.A.2
  • 46
    • 0036082654 scopus 로고    scopus 로고
    • The search and its outcome: High-resolution structures of ribosomal particles from mesophilic, thermophilic, and halophilic bacteria at various functional states
    • Yonath A (2002) The search and its outcome: high-resolution structures of ribosomal particles from mesophilic, thermophilic, and halophilic bacteria at various functional states. Annu Rev Biophys Biomol Struct 31:257-273
    • (2002) Annu Rev Biophys Biomol Struct , vol.31 , pp. 257-273
    • Yonath, A.1
  • 47
    • 2542470615 scopus 로고    scopus 로고
    • The active site of the ribosome is composed of two layers of conserved nucleotides with distinct roles in peptide bond formation and peptide release
    • Youngman EM, Brunelle JL, Kochaniak AB, Green R (2004) The active site of the ribosome is composed of two layers of conserved nucleotides with distinct roles in peptide bond formation and peptide release. Cell 117:589-599
    • (2004) Cell , vol.117 , pp. 589-599
    • Youngman, E.M.1    Brunelle, J.L.2    Kochaniak, A.B.3    Green, R.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.