-
1
-
-
31544450286
-
Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection
-
Baba, T., Ara, T., Hasegawa, M., Takai, Y., Okumura, Y., Baba, M., et al. (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2: 2006-0008.
-
(2006)
Mol Syst Biol
, vol.2
, pp. 2006-0008
-
-
Baba, T.1
Ara, T.2
Hasegawa, M.3
Takai, Y.4
Okumura, Y.5
Baba, M.6
-
2
-
-
0029923751
-
Structure of the C-terminal end of the nascent peptide influences translation termination
-
Bjornsson, A., Mottagui-Tabar, S., and Isaksson, L.A. (1996) Structure of the C-terminal end of the nascent peptide influences translation termination. EMBO J 15: 1696-1704.
-
(1996)
EMBO J
, vol.15
, pp. 1696-1704
-
-
Bjornsson, A.1
Mottagui-Tabar, S.2
Isaksson, L.A.3
-
3
-
-
34548569082
-
Lon protease degrades transfer-messenger RNA-tagged proteins
-
Choy, J.S., Aung, L.L., and Karzai, A.W. (2007) Lon protease degrades transfer-messenger RNA-tagged proteins. J Bacteriol 189: 6564-6571.
-
(2007)
J Bacteriol
, vol.189
, pp. 6564-6571
-
-
Choy, J.S.1
Aung, L.L.2
Karzai, A.W.3
-
4
-
-
0036364355
-
Competition between SsrA tagging and translational termination at weak stop codons in Escherichia coli
-
Collier, J., Binet, E., and Bouloc, P. (2002) Competition between SsrA tagging and translational termination at weak stop codons in Escherichia coli. Mol Microbiol 45: 745-754.
-
(2002)
Mol Microbiol
, vol.45
, pp. 745-754
-
-
Collier, J.1
Binet, E.2
Bouloc, P.3
-
5
-
-
0034612342
-
One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products
-
Datsenko, K.A., and Wanner, B.L. (2000) One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci USA 97: 6640-6645.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 6640-6645
-
-
Datsenko, K.A.1
Wanner, B.L.2
-
6
-
-
58249104517
-
A role for the 30S subunit E site in maintenance of the translational reading frame
-
Devaraj, A., Shoji, S., Holbrook, E.D., and Fredrick, K. (2009) A role for the 30S subunit E site in maintenance of the translational reading frame. RNA 15: 255-265.
-
(2009)
RNA
, vol.15
, pp. 255-265
-
-
Devaraj, A.1
Shoji, S.2
Holbrook, E.D.3
Fredrick, K.4
-
7
-
-
0034672060
-
A post-translational modification in the GGQ motif of RF2 from Escherichia coli stimulates termination of translation
-
Dincbas-Renqvist, V., Engstrom, A., Mora, L., Heurgue-Hamard, V., Buckingham, R., and Ehrenberg, M. (2000) A post-translational modification in the GGQ motif of RF2 from Escherichia coli stimulates termination of translation. EMBO J 19: 6900-6907.
-
(2000)
EMBO J
, vol.19
, pp. 6900-6907
-
-
Dincbas-Renqvist, V.1
Engstrom, A.2
Mora, L.3
Heurgue-Hamard, V.4
Buckingham, R.5
Ehrenberg, M.6
-
8
-
-
37649019612
-
Pseudouridylation of helix 69 of 23S rRNA is necessary for an effective translation termination
-
Ejby, M., Sorensen, M.A., and Pedersen, S. (2007) Pseudouridylation of helix 69 of 23S rRNA is necessary for an effective translation termination. Proc Natl Acad Sci USA 104: 19410-19415.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 19410-19415
-
-
Ejby, M.1
Sorensen, M.A.2
Pedersen, S.3
-
9
-
-
33845932593
-
Pro in the A-site of SecM-arrested ribosomes inhibits the recruitment of transfer-messenger RNA
-
Pro in the A-site of SecM-arrested ribosomes inhibits the recruitment of transfer-messenger RNA. J Biol Chem 281: 34258-34268.
-
(2006)
J Biol Chem
, vol.281
, pp. 34258-34268
-
-
Garza-Sánchez, F.1
Janssen, B.D.2
Hayes, C.S.3
-
10
-
-
42249114323
-
Amino acid starvation and colicin D treatment induce A-site mRNA cleavage in Escherichia coli
-
Garza-Sánchez, F., Gin, J.G., and Hayes, C.S. (2008) Amino acid starvation and colicin D treatment induce A-site mRNA cleavage in Escherichia coli. J Mol Biol 378: 505-519.
-
(2008)
J Mol Biol
, vol.378
, pp. 505-519
-
-
Garza-Sánchez, F.1
Gin, J.G.2
Hayes, C.S.3
-
11
-
-
0032079329
-
The ClpXP and ClpAP proteases degrade proteins with carboxy-terminal peptide tails added by the SsrA-tagging system
-
Gottesman, S., Roche, E., Zhou, Y., and Sauer, R.T. (1998) The ClpXP and ClpAP proteases degrade proteins with carboxy-terminal peptide tails added by the SsrA-tagging system. Genes Dev 12: 1338-1347.
-
(1998)
Genes Dev
, vol.12
, pp. 1338-1347
-
-
Gottesman, S.1
Roche, E.2
Zhou, Y.3
Sauer, R.T.4
-
12
-
-
22244456758
-
The pseudouridine synthase RluD is required for normal ribosome assembly and function in Escherichia coli
-
Gutgsell, N.S., Deutscher, M.P., and Ofengand, J. (2005) The pseudouridine synthase RluD is required for normal ribosome assembly and function in Escherichia coli. RNA 11: 1141-1152.
-
(2005)
RNA
, vol.11
, pp. 1141-1152
-
-
Gutgsell, N.S.1
Deutscher, M.P.2
Ofengand, J.3
-
13
-
-
71549151293
-
Beyond ribosome rescue: tmRNA and co-translational processes
-
Hayes, C.S., and Keiler, K.C. (2010) Beyond ribosome rescue: tmRNA and co-translational processes. FEBS Lett 584: 413-419.
-
(2010)
FEBS Lett
, vol.584
, pp. 413-419
-
-
Hayes, C.S.1
Keiler, K.C.2
-
14
-
-
0242361562
-
Cleavage of the A site mRNA codon during ribosome pausing provides a mechanism for translational quality control
-
Hayes, C.S., and Sauer, R.T. (2003) Cleavage of the A site mRNA codon during ribosome pausing provides a mechanism for translational quality control. Mol Cell 12: 903-911.
-
(2003)
Mol Cell
, vol.12
, pp. 903-911
-
-
Hayes, C.S.1
Sauer, R.T.2
-
15
-
-
0037072794
-
Proline residues at the C terminus of nascent chains induce SsrA tagging during translation termination
-
Hayes, C.S., Bose, B., and Sauer, R.T. (2002a) Proline residues at the C terminus of nascent chains induce SsrA tagging during translation termination. J Biol Chem 277: 33825-33832.
-
(2002)
J Biol Chem
, vol.277
, pp. 33825-33832
-
-
Hayes, C.S.1
Bose, B.2
Sauer, R.T.3
-
16
-
-
0037133638
-
Stop codons preceded by rare arginine codons are efficient determinants of SsrA tagging in Escherichia coli
-
Hayes, C.S., Bose, B., and Sauer, R.T. (2002b) Stop codons preceded by rare arginine codons are efficient determinants of SsrA tagging in Escherichia coli. Proc Natl Acad Sci USA 99: 3440-3445.
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 3440-3445
-
-
Hayes, C.S.1
Bose, B.2
Sauer, R.T.3
-
17
-
-
2642666491
-
Degradation of carboxy-terminal-tagged cytoplasmic proteins by the Escherichia coli protease HflB (FtsH)
-
Herman, C., Thevenet, D., Bouloc, P., Walker, G.C., and R.D.Ari (1998) Degradation of carboxy-terminal-tagged cytoplasmic proteins by the Escherichia coli protease HflB (FtsH). Genes Dev 12: 1348-1355.
-
(1998)
Genes Dev
, vol.12
, pp. 1348-1355
-
-
Herman, C.1
Thevenet, D.2
Bouloc, P.3
Walker, G.C.4
Ari, R.D.5
-
18
-
-
70450277108
-
Ribosomal protein S12 and aminoglycoside antibiotics modulate A-site mRNA cleavage and transfer-messenger RNA activity in Escherichia coli
-
Holberger, L.E., and Hayes, C.S. (2009) Ribosomal protein S12 and aminoglycoside antibiotics modulate A-site mRNA cleavage and transfer-messenger RNA activity in Escherichia coli. J Biol Chem 284: 32188-32200.
-
(2009)
J Biol Chem
, vol.284
, pp. 32188-32200
-
-
Holberger, L.E.1
Hayes, C.S.2
-
19
-
-
1842526451
-
Ribosome rescue by tmRNA requires truncated mRNAs
-
Ivanova, N., Pavlov, M.Y., Felden, B., and Ehrenberg, M. (2004) Ribosome rescue by tmRNA requires truncated mRNAs. J Mol Biol 338: 33-41.
-
(2004)
J Mol Biol
, vol.338
, pp. 33-41
-
-
Ivanova, N.1
Pavlov, M.Y.2
Felden, B.3
Ehrenberg, M.4
-
20
-
-
70350526964
-
Kinetics of paused ribosome recycling in Escherichia coli
-
Janssen, B.D., and Hayes, C.S. (2009) Kinetics of paused ribosome recycling in Escherichia coli. J Mol Biol 394: 251-267.
-
(2009)
J Mol Biol
, vol.394
, pp. 251-267
-
-
Janssen, B.D.1
Hayes, C.S.2
-
21
-
-
0036893271
-
Inhibition of translation termination mediated by an interaction of eukaryotic release factor 1 with a nascent peptidyl-tRNA
-
Janzen, D.M., Frolova, L., and Geballe, A.P. (2002) Inhibition of translation termination mediated by an interaction of eukaryotic release factor 1 with a nascent peptidyl-tRNA. Mol Cell Biol 22: 8562-8570.
-
(2002)
Mol Cell Biol
, vol.22
, pp. 8562-8570
-
-
Janzen, D.M.1
Frolova, L.2
Geballe, A.P.3
-
22
-
-
0345465673
-
SmpB, a unique RNA-binding protein essential for the peptide-tagging activity of SsrA (tmRNA)
-
Karzai, A.W., Susskind, M.M., and Sauer, R.T. (1999) SmpB, a unique RNA-binding protein essential for the peptide-tagging activity of SsrA (tmRNA). EMBO J 18: 3793-3799.
-
(1999)
EMBO J
, vol.18
, pp. 3793-3799
-
-
Karzai, A.W.1
Susskind, M.M.2
Sauer, R.T.3
-
23
-
-
0030024281
-
Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA
-
Keiler, K.C., Waller, P.R., and Sauer, R.T. (1996) Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA. Science 271: 990-993.
-
(1996)
Science
, vol.271
, pp. 990-993
-
-
Keiler, K.C.1
Waller, P.R.2
Sauer, R.T.3
-
24
-
-
0030796260
-
Methods for generating precise deletions and insertions in the genome of wild-type Escherichia coli: application to open reading frame characterization
-
Link, A.J., Phillips, D., and Church, G.M. (1997) Methods for generating precise deletions and insertions in the genome of wild-type Escherichia coli: application to open reading frame characterization. J Bacteriol 179: 6228-6237.
-
(1997)
J Bacteriol
, vol.179
, pp. 6228-6237
-
-
Link, A.J.1
Phillips, D.2
Church, G.M.3
-
25
-
-
0029047851
-
Translational termination efficiency in mammals is influenced by the base following the stop codon
-
McCaughan, K.K., Brown, C.M., Dalphin, M.E., Berry, M.J., and Tate, W.P. (1995) Translational termination efficiency in mammals is influenced by the base following the stop codon. Proc Natl Acad Sci USA 92: 5431-5435.
-
(1995)
Proc Natl Acad Sci USA
, vol.92
, pp. 5431-5435
-
-
McCaughan, K.K.1
Brown, C.M.2
Dalphin, M.E.3
Berry, M.J.4
Tate, W.P.5
-
26
-
-
36949051443
-
Assembly mapping of 30S ribosomal proteins from E. coli
-
Mizushima, S., and Nomura, M. (1970) Assembly mapping of 30S ribosomal proteins from E. coli. Nature 226: 1214.
-
(1970)
Nature
, vol.226
, pp. 1214
-
-
Mizushima, S.1
Nomura, M.2
-
27
-
-
34247103448
-
The tmRNA system for translational surveillance and ribosome rescue
-
Moore, S.D., and Sauer, R.T. (2007) The tmRNA system for translational surveillance and ribosome rescue. Annu Rev Biochem 76: 101-124.
-
(2007)
Annu Rev Biochem
, vol.76
, pp. 101-124
-
-
Moore, S.D.1
Sauer, R.T.2
-
28
-
-
37249066982
-
Methylation of bacterial release factors RF1 and RF2 is required for normal translation termination in vivo
-
Mora, L., Heurgue-Hamard, V., de Zamaroczy, M., Kervestin, S., and Buckingham, R.H. (2007) Methylation of bacterial release factors RF1 and RF2 is required for normal translation termination in vivo. J Biol Chem 282: 35638-35645.
-
(2007)
J Biol Chem
, vol.282
, pp. 35638-35645
-
-
Mora, L.1
Heurgue-Hamard, V.2
de Zamaroczy, M.3
Kervestin, S.4
Buckingham, R.H.5
-
29
-
-
0028175762
-
The second to last amino acid in the nascent peptide as a codon context determinant
-
Mottagui-Tabar, S., Bjornsson, A., and Isaksson, L.A. (1994) The second to last amino acid in the nascent peptide as a codon context determinant. EMBO J 13: 249-257.
-
(1994)
EMBO J
, vol.13
, pp. 249-257
-
-
Mottagui-Tabar, S.1
Bjornsson, A.2
Isaksson, L.A.3
-
30
-
-
0023688660
-
Assembly of the 30S subunit from Escherichia coli ribosomes occurs via two assembly domains which are initiated by S4 and S7
-
Nowotny, V., and Nierhaus, K.H. (1988) Assembly of the 30S subunit from Escherichia coli ribosomes occurs via two assembly domains which are initiated by S4 and S7. Biochemistry 27: 7051-7055.
-
(1988)
Biochemistry
, vol.27
, pp. 7051-7055
-
-
Nowotny, V.1
Nierhaus, K.H.2
-
31
-
-
0141880634
-
Pseudouridines and pseudouridine synthases of the ribosome
-
Ofengand, J., Malhotra, A., Remme, J., Gutgsell, N.S., Del Campo, M., Jean-Charles, S., et al. (2001) Pseudouridines and pseudouridine synthases of the ribosome. Cold Spring Harb Symp Quant Biol 66: 147-159.
-
(2001)
Cold Spring Harb Symp Quant Biol
, vol.66
, pp. 147-159
-
-
Ofengand, J.1
Malhotra, A.2
Remme, J.3
Gutgsell, N.S.4
Del Campo, M.5
Jean-Charles, S.6
-
32
-
-
0030779476
-
Release factor RF3 abolishes competition between release factor RF1 and ribosome recycling factor (RRF) for a ribosome binding site
-
Pavlov, M.Y., Freistroffer, D.V., Heurgue-Hamard, V., Buckingham, R.H., and Ehrenberg, M. (1997a) Release factor RF3 abolishes competition between release factor RF1 and ribosome recycling factor (RRF) for a ribosome binding site. J Mol Biol 273: 389-401.
-
(1997)
J Mol Biol
, vol.273
, pp. 389-401
-
-
Pavlov, M.Y.1
Freistroffer, D.V.2
Heurgue-Hamard, V.3
Buckingham, R.H.4
Ehrenberg, M.5
-
33
-
-
0030928327
-
Fast recycling of Escherichia coli ribosomes requires both ribosome recycling factor (RRF) and release factor RF3
-
Pavlov, M.Y., Freistroffer, D.V., MacDougall, J., Buckingham, R.H., and Ehrenberg, M. (1997b) Fast recycling of Escherichia coli ribosomes requires both ribosome recycling factor (RRF) and release factor RF3. EMBO J 16: 4134-4141.
-
(1997)
EMBO J
, vol.16
, pp. 4134-4141
-
-
Pavlov, M.Y.1
Freistroffer, D.V.2
MacDougall, J.3
Buckingham, R.H.4
Ehrenberg, M.5
-
34
-
-
0032484028
-
A direct estimation of the context effect on the efficiency of termination
-
Pavlov, M.Y., Freistroffer, D.V., Dincbas, V., MacDougall, J., Buckingham, R.H., and Ehrenberg, M. (1998) A direct estimation of the context effect on the efficiency of termination. J Mol Biol 284: 579-590.
-
(1998)
J Mol Biol
, vol.284
, pp. 579-590
-
-
Pavlov, M.Y.1
Freistroffer, D.V.2
Dincbas, V.3
MacDougall, J.4
Buckingham, R.H.5
Ehrenberg, M.6
-
35
-
-
0028821311
-
The identity of the base following the stop codon determines the efficiency of in vivo translational termination in Escherichia coli
-
Poole, E.S., Brown, C.M., and Tate, W.P. (1995) The identity of the base following the stop codon determines the efficiency of in vivo translational termination in Escherichia coli. EMBO J 14: 151-158.
-
(1995)
EMBO J
, vol.14
, pp. 151-158
-
-
Poole, E.S.1
Brown, C.M.2
Tate, W.P.3
-
36
-
-
0031787478
-
A pseudouridine synthase required for the formation of two universally conserved pseudouridines in ribosomal RNA is essential for normal growth of Escherichia coli
-
Raychaudhuri, S., Conrad, J., Hall, B.G., and Ofengand, J. (1998) A pseudouridine synthase required for the formation of two universally conserved pseudouridines in ribosomal RNA is essential for normal growth of Escherichia coli. RNA 4: 1407-1417.
-
(1998)
RNA
, vol.4
, pp. 1407-1417
-
-
Raychaudhuri, S.1
Conrad, J.2
Hall, B.G.3
Ofengand, J.4
-
37
-
-
0033575660
-
SsrA-mediated peptide tagging caused by rare codons and tRNA scarcity
-
Roche, E.D., and Sauer, R.T. (1999) SsrA-mediated peptide tagging caused by rare codons and tRNA scarcity. EMBO J 18: 4579-4589.
-
(1999)
EMBO J
, vol.18
, pp. 4579-4589
-
-
Roche, E.D.1
Sauer, R.T.2
-
38
-
-
0035958905
-
Identification of endogenous SsrA-tagged proteins reveals tagging at positions corresponding to stop codons
-
Roche, E.D., and Sauer, R.T. (2001) Identification of endogenous SsrA-tagged proteins reveals tagging at positions corresponding to stop codons. J Biol Chem 276: 28509-28515.
-
(2001)
J Biol Chem
, vol.276
, pp. 28509-28515
-
-
Roche, E.D.1
Sauer, R.T.2
-
39
-
-
0014348009
-
Release factors differing in specificity for terminator codons
-
Scolnick, E., Tompkins, R., Caskey, T., and Nirenberg, M. (1968) Release factors differing in specificity for terminator codons. Proc Natl Acad Sci USA 61: 768-774.
-
(1968)
Proc Natl Acad Sci USA
, vol.61
, pp. 768-774
-
-
Scolnick, E.1
Tompkins, R.2
Caskey, T.3
Nirenberg, M.4
-
40
-
-
73949097952
-
Translation factor LepA contributes to tellurite resistance in Escherichia coli but plays no apparent role in the fidelity of protein synthesis
-
Shoji, S., Janssen, B.D., Hayes, C.S., and Fredrick, K. (2010) Translation factor LepA contributes to tellurite resistance in Escherichia coli but plays no apparent role in the fidelity of protein synthesis. Biochimie 92: 157-163.
-
(2010)
Biochimie
, vol.92
, pp. 157-163
-
-
Shoji, S.1
Janssen, B.D.2
Hayes, C.S.3
Fredrick, K.4
-
41
-
-
14044271596
-
A previously uncharacterized role for small protein B (SmpB) in transfer messenger RNA-mediated trans-translation
-
Sundermeier, T.R., Dulebohn, D.P., Cho, H.J., and Karzai, A.W. (2005) A previously uncharacterized role for small protein B (SmpB) in transfer messenger RNA-mediated trans-translation. Proc Natl Acad Sci USA 102: 2316-2321.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 2316-2321
-
-
Sundermeier, T.R.1
Dulebohn, D.P.2
Cho, H.J.3
Karzai, A.W.4
-
42
-
-
0036850399
-
The C-terminal amino acid sequence of nascent peptide is a major determinant of SsrA tagging at all three stop codons
-
Sunohara, T., Abo, T., Inada, T., and Aiba, H. (2002) The C-terminal amino acid sequence of nascent peptide is a major determinant of SsrA tagging at all three stop codons. RNA 8: 1416-1427.
-
(2002)
RNA
, vol.8
, pp. 1416-1427
-
-
Sunohara, T.1
Abo, T.2
Inada, T.3
Aiba, H.4
-
43
-
-
0033249731
-
UGA: a dual signal for 'stop' and for recoding in protein synthesis
-
Tate, W.P., Mansell, J.B., Mannering, S.A., Irvine, J.H., Major, L.L., and Wilson, D.N. (1999) UGA: a dual signal for 'stop' and for recoding in protein synthesis. Biochemistry (Mosc) 64: 1342-1353.
-
(1999)
Biochemistry (Mosc)
, vol.64
, pp. 1342-1353
-
-
Tate, W.P.1
Mansell, J.B.2
Mannering, S.A.3
Irvine, J.H.4
Major, L.L.5
Wilson, D.N.6
-
44
-
-
0030437751
-
Functional specificity of amino acid at position 246 in the tRNA mimicry domain of bacterial release factor 2
-
Uno, M., Ito, K., and Nakamura, Y. (1996) Functional specificity of amino acid at position 246 in the tRNA mimicry domain of bacterial release factor 2. Biochimie 78: 935-943.
-
(1996)
Biochimie
, vol.78
, pp. 935-943
-
-
Uno, M.1
Ito, K.2
Nakamura, Y.3
-
45
-
-
0035805213
-
Crystal structure of the ribosome at 5.5 A resolution
-
Yusupov, M.M., Yusupova, G.Z., Baucom, A., Lieberman, K., Earnest, T.N., Cate, J.H., and Noller, H.F. (2001) Crystal structure of the ribosome at 5.5 A resolution. Science 292: 883-896.
-
(2001)
Science
, vol.292
, pp. 883-896
-
-
Yusupov, M.M.1
Yusupova, G.Z.2
Baucom, A.3
Lieberman, K.4
Earnest, T.N.5
Cate, J.H.6
Noller, H.F.7
|