-
1
-
-
85022338834
-
RNA-dependent cysteine biosynthesis in bacteria and archaea
-
Mukai, T. et al. RNA-dependent cysteine biosynthesis in bacteria and archaea. MBio 8, e00561-17 (2017).
-
(2017)
MBio
, vol.8
, pp. e00561-e00617
-
-
Mukai, T.1
-
2
-
-
84898629934
-
Pyrrolysyl-tRNA synthetase: An ordinary enzyme but an outstanding genetic code expansion tool
-
Wan, W., Tharp, J.M. & Liu, W.R. Pyrrolysyl-tRNA synthetase: an ordinary enzyme but an outstanding genetic code expansion tool. Biochim. Biophys. Acta 1844, 1059-1070 (2014).
-
(2014)
Biochim. Biophys. Acta
, vol.1844
, pp. 1059-1070
-
-
Wan, W.1
Tharp, J.M.2
Liu, W.R.3
-
3
-
-
85007320960
-
Pyrrolysyl-tRNA synthetase, an aminoacyl-tRNA synthetase for genetic code expansion
-
Crnković, A., Suzuki, T., Söll, D. & Reynolds, N.M. Pyrrolysyl-tRNA synthetase, an aminoacyl-tRNA synthetase for genetic code expansion. Croat. Chem. Acta 89, 163-174 (2016).
-
(2016)
Croat. Chem. Acta
, vol.89
, pp. 163-174
-
-
Crnković, A.1
Suzuki, T.2
Söll, D.3
Reynolds, N.M.4
-
4
-
-
79959314842
-
Functional context, biosynthesis, and genetic encoding of pyrrolysine
-
Gaston, M.A., Jiang, R. & Krzycki, J.A. Functional context, biosynthesis, and genetic encoding of pyrrolysine. Curr. Opin. Microbiol. 14, 342-349 (2011).
-
(2011)
Curr. Opin. Microbiol.
, vol.14
, pp. 342-349
-
-
Gaston, M.A.1
Jiang, R.2
Krzycki, J.A.3
-
5
-
-
44149083513
-
Adding L-lysine derivatives to the genetic code of mammalian cells with engineered pyrrolysyl-tRNA synthetases
-
Mukai, T. et al. Adding L-lysine derivatives to the genetic code of mammalian cells with engineered pyrrolysyl-tRNA synthetases. Biochem. Biophys. Res. Commun. 371, 818-822 (2008).
-
(2008)
Biochem. Biophys. Res. Commun.
, vol.371
, pp. 818-822
-
-
Mukai, T.1
-
6
-
-
84900420574
-
Expanding and reprogramming the genetic code of cells and animals
-
Chin, J.W. Expanding and reprogramming the genetic code of cells and animals. Annu. Rev. Biochem. 83, 379-408 (2014).
-
(2014)
Annu. Rev. Biochem.
, vol.83
, pp. 379-408
-
-
Chin, J.W.1
-
7
-
-
33847639279
-
Pyrrolysine is not hardwired for cotranslational insertion at UAG codons
-
Ambrogelly, A. et al. Pyrrolysine is not hardwired for cotranslational insertion at UAG codons. Proc. Natl. Acad. Sci. USA 104, 3141-3146 (2007).
-
(2007)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 3141-3146
-
-
Ambrogelly, A.1
-
8
-
-
84959017448
-
Efficient reassignment of a frequent serine codon in wild-type Escherichia coli
-
Ho, J.M. et al. Efficient reassignment of a frequent serine codon in wild-type Escherichia coli. ACS Synth. Biol. 5, 163-171 (2016).
-
(2016)
ACS Synth. Biol.
, vol.5
, pp. 163-171
-
-
Ho, J.M.1
-
9
-
-
85027946438
-
Expanded genetic code technologies for incorporating modified lysine at multiple sites
-
Yanagisawa, T., Umehara, T., Sakamoto, K. & Yokoyama, S. Expanded genetic code technologies for incorporating modified lysine at multiple sites. ChemBioChem 15, 2181-2187 (2014).
-
(2014)
ChemBioChem
, vol.15
, pp. 2181-2187
-
-
Yanagisawa, T.1
Umehara, T.2
Sakamoto, K.3
Yokoyama, S.4
-
10
-
-
84912074071
-
Polyspecific pyrrolysyl-tRNA synthetases from directed evolution
-
Guo, L.T. et al. Polyspecific pyrrolysyl-tRNA synthetases from directed evolution. Proc. Natl. Acad. Sci. USA 111, 16724-16729 (2014).
-
(2014)
Proc. Natl. Acad. Sci. USA
, vol.111
, pp. 16724-16729
-
-
Guo, L.T.1
-
11
-
-
84866548719
-
PylSn and the homologous N-terminal domain of pyrrolysyl-tRNA synthetase bind the tRNA that is essential for the genetic encoding of pyrrolysine
-
Jiang, R. & Krzycki, J.A. PylSn and the homologous N-terminal domain of pyrrolysyl-tRNA synthetase bind the tRNA that is essential for the genetic encoding of pyrrolysine. J. Biol. Chem. 287, 32738-32746 (2012).
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 32738-32746
-
-
Jiang, R.1
Krzycki, J.A.2
-
12
-
-
34250793331
-
The amino-terminal domain of pyrrolysyl-tRNA synthetase is dispensable in vitro but required for in vivo activity
-
Herring, S. et al. The amino-terminal domain of pyrrolysyl-tRNA synthetase is dispensable in vitro but required for in vivo activity. FEBS Lett. 581, 3197-3203 (2007).
-
(2007)
FEBS Lett.
, vol.581
, pp. 3197-3203
-
-
Herring, S.1
-
13
-
-
33749524376
-
Crystallization and preliminary X-ray crystallographic analysis of the catalytic domain of pyrrolysyl-tRNA synthetase from the methanogenic archaeon methanosarcina mazei
-
Yanagisawa, T., Ishii, R., Fukunaga, R., Nureki, O. & Yokoyama, S. Crystallization and preliminary X-ray crystallographic analysis of the catalytic domain of pyrrolysyl-tRNA synthetase from the methanogenic archaeon Methanosarcina mazei. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 62, 1031-1033 (2006).
-
(2006)
Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun.
, vol.62
, pp. 1031-1033
-
-
Yanagisawa, T.1
Ishii, R.2
Fukunaga, R.3
Nureki, O.4
Yokoyama, S.5
-
14
-
-
34547470915
-
Structure of pyrrolysyl-tRNA synthetase, an archaeal enzyme for genetic code innovation
-
Kavran, J.M. et al. Structure of pyrrolysyl-tRNA synthetase, an archaeal enzyme for genetic code innovation. Proc. Natl. Acad. Sci. USA 104, 11268-11273 (2007).
-
(2007)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 11268-11273
-
-
Kavran, J.M.1
-
15
-
-
61349139930
-
Pyl structure reveals the molecular basis of orthogonality
-
Pyl structure reveals the molecular basis of orthogonality. Nature 457, 1163-1167 (2009).
-
(2009)
Nature
, vol.457
, pp. 1163-1167
-
-
Nozawa, K.1
-
16
-
-
79955534060
-
A system for the continuous directed evolution of biomolecules
-
Esvelt, K.M., Carlson, J.C. & Liu, D.R. A system for the continuous directed evolution of biomolecules. Nature 472, 499-503 (2011).
-
(2011)
Nature
, vol.472
, pp. 499-503
-
-
Esvelt, K.M.1
Carlson, J.C.2
Liu, D.R.3
-
17
-
-
84969786561
-
Continuous evolution of bacillus thuringiensis toxins overcomes insect resistance
-
Badran, A.H. et al. Continuous evolution of Bacillus thuringiensis toxins overcomes insect resistance. Nature 533, 58-63 (2016).
-
(2016)
Nature
, vol.533
, pp. 58-63
-
-
Badran, A.H.1
-
18
-
-
84923266286
-
A system for the continuous directed evolution of proteases rapidly reveals drug-resistance mutations
-
Dickinson, B.C., Packer, M.S., Badran, A.H. & Liu, D.R. A system for the continuous directed evolution of proteases rapidly reveals drug-resistance mutations. Nat. Commun. 5, 5352 (2014).
-
(2014)
Nat. Commun.
, vol.5
, pp. 5352
-
-
Dickinson, B.C.1
Packer, M.S.2
Badran, A.H.3
Liu, D.R.4
-
19
-
-
85034865436
-
Continuous directed evolution of aminoacyl-tRNA synthetases
-
Bryson, D. et al. Continuous directed evolution of aminoacyl-tRNA synthetases. Nat Chem. Biol. 13 http://dx.doi.org/10.1038/nchembio.2474 (2017).
-
(2017)
Nat Chem. Biol.
, vol.13
-
-
Bryson, D.1
-
20
-
-
84863393863
-
Repeatability and contingency in the evolution of a key innovation in phage lambda
-
Meyer, J.R. et al. Repeatability and contingency in the evolution of a key innovation in phage lambda. Science 335, 428-432 (2012).
-
(2012)
Science
, vol.335
, pp. 428-432
-
-
Meyer, J.R.1
-
21
-
-
84894088759
-
Bacteriophages use an expanded genetic code on evolutionary paths to higher fitness
-
Hammerling, M.J. et al. Bacteriophages use an expanded genetic code on evolutionary paths to higher fitness. Nat. Chem. Biol. 10, 178-180 (2014).
-
(2014)
Nat. Chem. Biol.
, vol.10
, pp. 178-180
-
-
Hammerling, M.J.1
-
22
-
-
84943777049
-
Development of potent in vivo mutagenesis plasmids with broad mutational spectra
-
Badran, A.H. & Liu, D.R. Development of potent in vivo mutagenesis plasmids with broad mutational spectra. Nat. Commun. 6, 8425 (2015).
-
(2015)
Nat. Commun.
, vol.6
, pp. 8425
-
-
Badran, A.H.1
Liu, D.R.2
-
23
-
-
0037705402
-
Roles of individual domains and conserved motifs of the AAA+ chaperone ClpB in oligomerization, ATP hydrolysis, and chaperone activity
-
Mogk, A. et al. Roles of individual domains and conserved motifs of the AAA+ chaperone ClpB in oligomerization, ATP hydrolysis, and chaperone activity. J. Biol. Chem. 278, 17615-17624 (2003).
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 17615-17624
-
-
Mogk, A.1
-
24
-
-
84959498646
-
70S-scanning initiation is a novel and frequent initiation mode of ribosomal translation in bacteria
-
Yamamoto, H. et al. 70S-scanning initiation is a novel and frequent initiation mode of ribosomal translation in bacteria. Proc. Natl. Acad. Sci. USA 113, E1180-E1189 (2016).
-
(2016)
Proc. Natl. Acad. Sci. USA
, vol.113
, pp. E1180-E1189
-
-
Yamamoto, H.1
-
25
-
-
85019471052
-
Two-tier screening platform for directed evolution of aminoacyl-tRNA synthetases with enhanced stop codon suppression efficiency
-
Owens, A.E., Grasso, K.T., Ziegler, C.A. & Fasan, R. Two-tier screening platform for directed evolution of aminoacyl-tRNA synthetases with enhanced stop codon suppression efficiency. ChemBioChem 18, 1109-1116 (2017).
-
(2017)
ChemBioChem
, vol.18
, pp. 1109-1116
-
-
Owens, A.E.1
Grasso, K.T.2
Ziegler, C.A.3
Fasan, R.4
-
26
-
-
56049106840
-
Multistep engineering of pyrrolysyl-tRNA synthetase to genetically encode N -(o-azidobenzyloxycarbonyl) lysine for site-specific protein modification
-
Yanagisawa, T. et al. Multistep engineering of pyrrolysyl-tRNA synthetase to genetically encode N -(o-azidobenzyloxycarbonyl) lysine for site-specific protein modification. Chem. Biol. 15, 1187-1197 (2008).
-
(2008)
Chem. Biol.
, vol.15
, pp. 1187-1197
-
-
Yanagisawa, T.1
-
27
-
-
85019988946
-
Discovery of extremely halophilic, methyl-reducing euryarchaea provides insights into the evolutionary origin of methanogenesis
-
Sorokin, D.Y. et al. Discovery of extremely halophilic, methyl-reducing euryarchaea provides insights into the evolutionary origin of methanogenesis. Nat. Microbiol. 2, 17081 (2017).
-
(2017)
Nat. Microbiol.
, vol.2
, pp. 17081
-
-
Sorokin, D.Y.1
-
28
-
-
84884525873
-
Upgrading protein synthesis for synthetic biology
-
O'Donoghue, P., Ling, J., Wang, Y.S. & Söll, D. Upgrading protein synthesis for synthetic biology. Nat. Chem. Biol. 9, 594-598 (2013).
-
(2013)
Nat. Chem. Biol.
, vol.9
, pp. 594-598
-
-
O'Donoghue, P.1
Ling, J.2
Wang, Y.S.3
Söll, D.4
-
29
-
-
0031823330
-
A new assay for tRNA aminoacylation kinetics
-
Wolfson, A.D., Pleiss, J.A. & Uhlenbeck, O.C. A new assay for tRNA aminoacylation kinetics. RNA 4, 1019-1023 (1998).
-
(1998)
RNA
, vol.4
, pp. 1019-1023
-
-
Wolfson, A.D.1
Pleiss, J.A.2
Uhlenbeck, O.C.3
-
30
-
-
0014413585
-
Mechanism of canavanine death in Escherichia coli. II. Membrane-bound canavanyl-protein and nuclear disruption
-
Schachtele, C.F., Anderson, D.L. & Rogers, P. Mechanism of canavanine death in Escherichia coli. II. Membrane-bound canavanyl-protein and nuclear disruption. J. Mol. Biol. 33, 861-872 (1968).
-
(1968)
J. Mol. Biol.
, vol.33
, pp. 861-872
-
-
Schachtele, C.F.1
Anderson, D.L.2
Rogers, P.3
-
31
-
-
84906056183
-
Exploring the substrate range of wild-type aminoacyl-tRNA synthetases
-
Fan, C., Ho, J.M.L., Chirathivat, N., Söll, D. & Wang, Y.S. Exploring the substrate range of wild-type aminoacyl-tRNA synthetases. ChemBioChem 15, 1805-1809 (2014).
-
(2014)
ChemBioChem
, vol.15
, pp. 1805-1809
-
-
Fan, C.1
Ho, J.M.L.2
Chirathivat, N.3
Söll, D.4
Wang, Y.S.5
-
32
-
-
0029877579
-
Transfer RNA-dependent cognate amino acid recognition by an aminoacyl-tRNA synthetase
-
Hong, K.W. et al. Transfer RNA-dependent cognate amino acid recognition by an aminoacyl-tRNA synthetase. EMBO J. 15, 1983-1991 (1996).
-
(1996)
EMBO J.
, vol.15
, pp. 1983-1991
-
-
Hong, K.W.1
-
33
-
-
84957430346
-
The enduring utility of continuous culturing in experimental evolution
-
Gresham, D. & Dunham, M.J. The enduring utility of continuous culturing in experimental evolution. Genomics 104 6 Pt A, 399-405 (2014).
-
(2014)
Genomics
, vol.104
, Issue.6
, pp. 399-405
-
-
Gresham, D.1
Dunham, M.J.2
-
34
-
-
84878427504
-
Experimental interrogation of the path dependence and stochasticity of protein evolution using phage-assisted continuous evolution
-
Dickinson, B.C., Leconte, A.M., Allen, B., Esvelt, K.M. & Liu, D.R. Experimental interrogation of the path dependence and stochasticity of protein evolution using phage-assisted continuous evolution. Proc. Natl. Acad. Sci. USA 110, 9007-9012 (2013).
-
(2013)
Proc. Natl. Acad. Sci. USA
, vol.110
, pp. 9007-9012
-
-
Dickinson, B.C.1
Leconte, A.M.2
Allen, B.3
Esvelt, K.M.4
Liu, D.R.5
-
35
-
-
84905487458
-
Crystallization and preliminary X-ray crystallographic analysis of a bacterial asn-transamidosome
-
Suzuki, T., Yamashita, K., Tanaka, Y., Tanaka, I. & Yao, M. Crystallization and preliminary X-ray crystallographic analysis of a bacterial Asn-transamidosome. Acta Crystallogr. F Struct. Biol. Commun. 70, 790-793 (2014).
-
(2014)
Acta Crystallogr. F Struct. Biol. Commun.
, vol.70
, pp. 790-793
-
-
Suzuki, T.1
Yamashita, K.2
Tanaka, Y.3
Tanaka, I.4
Yao, M.5
-
36
-
-
77149143215
-
Rapid, nondenaturing RNA purification using weak anion-exchange fast performance liquid chromatography
-
Easton, L.E., Shibata, Y. & Lukavsky, P.J. Rapid, nondenaturing RNA purification using weak anion-exchange fast performance liquid chromatography. RNA 16, 647-653 (2010).
-
(2010)
RNA
, vol.16
, pp. 647-653
-
-
Easton, L.E.1
Shibata, Y.2
Lukavsky, P.J.3
-
38
-
-
66249112826
-
Decision-making in structure solution using Bayesian estimates of map quality: The PHENIX AutoSol wizard
-
Terwilliger, T.C. et al. Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard. Acta Crystallogr. D Biol. Crystallogr. 65, 582-601 (2009).
-
(2009)
Acta Crystallogr. D Biol. Crystallogr.
, vol.65
, pp. 582-601
-
-
Terwilliger, T.C.1
-
39
-
-
37349103121
-
Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard
-
Terwilliger, T.C. et al. Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard. Acta Crystallogr. D Biol. Crystallogr. 64, 61-69 (2008).
-
(2008)
Acta Crystallogr. D Biol. Crystallogr.
, vol.64
, pp. 61-69
-
-
Terwilliger, T.C.1
-
40
-
-
84860273177
-
Towards automated crystallographic structure refinement with phenix.refine
-
Afonine, P.V. et al. Towards automated crystallographic structure refinement with phenix.refine. Acta Crystallogr. D Biol. Crystallogr. 68, 352-367 (2012).
-
(2012)
Acta Crystallogr. D Biol. Crystallogr.
, vol.68
, pp. 352-367
-
-
Afonine, P.V.1
-
41
-
-
77957946297
-
-
(Global Phasing Ltd., Cambridge, UK)
-
Bricogne, G. et al. BUSTER v. 2.10.2 (Global Phasing Ltd., Cambridge, UK, 2016).
-
(2016)
BUSTER V. 2.10.2
-
-
Bricogne, G.1
-
42
-
-
84878320079
-
New model-fitting and model-completion programs for automated iterative nucleic acid refinement
-
Yamashita, K., Zhou, Y., Tanaka, I. & Yao, M. New model-fitting and model-completion programs for automated iterative nucleic acid refinement. Acta Crystallogr. D Biol. Crystallogr. 69, 1171-1179 (2013).
-
(2013)
Acta Crystallogr. D Biol. Crystallogr.
, vol.69
, pp. 1171-1179
-
-
Yamashita, K.1
Zhou, Y.2
Tanaka, I.3
Yao, M.4
-
44
-
-
84858663085
-
An asymmetric synthesis of L-pyrrolysine
-
Wong, M.L., Guzei, I.A. & Kiessling, L.L. An asymmetric synthesis of L-pyrrolysine. Org. Lett. 14, 1378-1381 (2012).
-
(2012)
Org. Lett.
, vol.14
, pp. 1378-1381
-
-
Wong, M.L.1
Guzei, I.A.2
Kiessling, L.L.3
-
45
-
-
84894101033
-
Negative selection and stringency modulation in phage-assisted continuous evolution
-
Carlson, J.C., Badran, A.H., Guggiana-Nilo, D.A. & Liu, D.R. Negative selection and stringency modulation in phage-assisted continuous evolution. Nat. Chem. Biol. 10, 216-222 (2014).
-
(2014)
Nat. Chem. Biol.
, vol.10
, pp. 216-222
-
-
Carlson, J.C.1
Badran, A.H.2
Guggiana-Nilo, D.A.3
Liu, D.R.4
-
46
-
-
84959102577
-
Continuous directed evolution of DNA-binding proteins to improve TALEN specificity
-
Hubbard, B.P. et al. Continuous directed evolution of DNA-binding proteins to improve TALEN specificity. Nat. Methods 12, 939-942 (2015).
-
(2015)
Nat. Methods
, vol.12
, pp. 939-942
-
-
Hubbard, B.P.1
|