參考文獻 |
1. Swairjo, M., Otero, F., Yang, X.-L., Lovato, M., Skene, R., McRee, D., Pouplana, L. and Schimmel, P. (2004) Alanyl-tRNA Synthetase Crystal Structure and Design for Acceptor-Stem Recognition. Molecular cell, 13, 829-841.
2. Carter, C. (1993) Cognition, Mechanism, and Evolutionary Relationships in Aminoacyl-tRNA Synthetases. Annual review of biochemistry, 62, 715-748.
3. Woese, C., Olsen, G., Ibba, M. and Soll, D. (2000) Aminoacyl-tRNA Synthetases, the Genetic Code, and the Evolutionary Process. Microbiology and molecular biology reviews : MMBR, 64, 202-236.
4. Buechter, D. and Schimmel, P. (1993) Dissection of a class II tRNA synthetase: Determinants for minihelix recognition are tightly associated with domain for amino acid activation. Biochemistry, 32, 5267-5272.
5. Jasin, M., Regan, L. and Schimmel, P. (1983) Modular arrangement of functional domains along the sequence of an aminoacyl tRNA synthetase. Nature, 306, 441-447.
6. Beebe, K., Pouplana, L. and Schimmel, P. (2003) Elucidation of tRNA-dependent editing by a class II tRNA synthetase and significance for cell viability. The EMBO journal, 22, 668-675.
7. Naganuma, M., Sekine, S.-i., Fukunaga, R. and Yokoyama, S. (2009) Unique protein architecture of alanyl-tRNA synthetase for aminoacylation, editing, and dimerization. Proceedings of the National Academy of Sciences of the United States of America, 106, 8489-8494.
8. Sokabe, M., Ose, T., Nakamura, A., Tokunaga, K., Nureki, O., Yao, M. and Tanaka, I. (2009) The structure of alanyl-tRNA synthetase with editing domain. Proceedings of the National Academy of Sciences of the United States of America, 106, 11028-11033.
9. Beebe, K., Mock, M., Merriman, E. and Schimmel, P. (2008) Distinct domains of tRNA synthetase recognize the same base pair. Nature, 451, 90-93.
10. Sun, L., Song, Y., Blocquel, D., Yang, X.-L. and Schimmel, P. (2016) Two crystal structures reveal design for repurposing the C-Ala domain of human AlaRS. Proceedings of the National Academy of Sciences, 113, 201617316.
11. Guo, M., Chong, Y., Beebe, K., Shapiro, R., Yang, X.-L. and Schimmel, P. (2009) The C-Ala Domain Brings Together Editing and Aminoacylation Functions on One tRNA. Science (New York, N.Y.), 325, 744-747.
12. Wang, X., Wang, Q., Tang, H., Chen, B., Dong, X., Niu, S., Li, S., Shi, Y., Shan, W. and Zaiqiang, Z. (2019) Novel Alanyl-tRNA Synthetase 2 Pathogenic Variants in Leukodystrophies. Frontiers in Neurology, 10, 1321.
13. Kuo, M., Antonellis, A. and Shakkottai, V. (2019) Alanyl-tRNA Synthetase 2 (AARS2)-Related Ataxia Without Leukoencephalopathy. The Cerebellum, 19.
14. Sommerville, E., Zhou, X.-L., Oláhová, M., Jenkins, J., Euro, L., Konovalova, S., Hilander, T., Pyle, A., He, L., Habeebu, S.S. et al. (2018) Instability of the mitochondrial alanyl-tRNA synthetase underlies fatal infantile-onset cardiomyopathy. Human molecular genetics, 28.
15. Chang, C.-P., Tseng, Y.-K., Ko, C.-Y. and Wang, C.-C. (2011) Alanyl-tRNA synthetase genes of Vanderwaltozyma polyspora arose from duplication of a dual-functional predecessor of mitochondrial origin. Nucleic acids research, 40, 314-322.
16. McClain, W. and Foss, K. (1988) Changing the Identity of a tRNA by Introducing a GU Wobble Pair near the 3′ Acceptor End. Science (New York, N.Y.), 240, 793-796.
17. Musier-Forsyth, K., Usman, N., Scaringe, S., Doudna, J., Green, R. and Schimmel, P. (1991) Specificity for Aminoacylation of an RNA Helix: An Unpaired, Exocyclic Amino Group in the Minor Groove. Science (New York, N.Y.), 253, 784-786.
18. Beuning, P., Gulotta, M. and Musier-Forsyth, K. (1997) Atomic Group “Mutagenesis” Reveals Major Groove Fine Interactions of a tRNA Synthetase with an RNA Helix. Journal of The American Chemical Society - J AM CHEM SOC, 119.
19. Chong, Y., Guo, M., Yang, X.-L., Kuhle, B., Naganuma, M., Sekine, S.-i., Yokoyama, S. and Schimmel, P. (2018) Distinct ways of G:U recognition by conserved tRNA binding motifs. Proceedings of the National Academy of Sciences, 115, 201807109.
20. Kuhle, B., Chihade, J. and Schimmel, P. (2020) Relaxed sequence constraints favor mutational freedom in idiosyncratic metazoan mitochondrial tRNAs. Nature Communications, 11.
21. Lovato, M., Swairjo, M. and Schimmel, P. (2004) Positional Recognition of a tRNA Determinant Dependent on a Peptide Insertion. Molecular cell, 13, 843-851.
22. Chihade, J., Hayashibara, K., Shiba, K. and Schimmel, P. (1998) Strong Selective Pressure To Use G:U To Mark an RNA Acceptor Stem for Alanine †. Biochemistry, 37, 9193-9202.
23. Watanabe, Y.-I., Suematsu, T. and Ohtsuki, T. (2014) Losing the stem-loop structure from metazoan mitochondrial tRNAs and co-evolution of interacting factors. Frontiers in genetics, 5, 109.
24. Lovato, M., Chihade, J. and Schimmel, P. (2001) Translocation within the acceptor helix of a major tRNA identity determinant. The EMBO journal, 20, 4846-4853.
25. Okimoto, R., Macfarlane, J., Clary, D. and Wolstenholme, D. (1992) The Mitochondrial Genomes of Two Nematodes, Caenorhabditis Elegans and Ascaris Suum. Genetics, 130, 471-498.
26. Sakurai, M., Ohtsuki, T. and Watanabe, K. (2005) Modification at position 9 with 1-methyladenosine is crucial for structure and function of nematode mitochondrial tRNAs lacking the entire T-arm. Nucleic acids research, 33, 1653-1661.
27. Chang, K.-J. and Wang, C.-C. (2004) Translation Initiation from A Naturally Occurring Non-AUG Codon in Saccharomyces cerevisiae. The Journal of biological chemistry, 279, 13778-13785.
28. Lee, Y.-H., Lo, Y.-T., Chang, C.-P., Yeh, C.-S., Chang, T.-H., Chen, Y.-W., Tseng, Y.-K. and Wang, C.-C. (2019) Naturally occurring dual recognition of tRNAHis substrates with and without a universal identity element. RNA Biol, 16, 1275-1285.
29. Schimmel, P., Giegé, R., Moras, D. and Yokoyama, S. (1993) An operational RNA code for amino acids and possible relation to genetic code. Proceedings of the National Academy of Sciences of the United States of America, 90, 8763-8768.
30. Hou, Y.-M. and Schimmel, P. (1988) A simple structural feature is a major determinant of the identity of a transfer RNA. Nature, 333, 140-145.
31. McClain, W. and Foss, K. (1988) McClain, W. H. & Foss, K. Changing the acceptor identity of a transfer RNA by altering nucleotides in a "variable pocket". Science 241, 1804-1807. Science (New York, N.Y.), 241, 1804-1807.
32. Zeng, Q.-Y., Peng, G.X., Li, G., Zhou, J.-B., Zheng, W.-Q., Xue, M.-Q., Wang, E.-D. and Zhou, X.-L. (2019) The G3-U70-independent tRNA recognition by human mitochondrial alanyl-tRNA synthetase. Nucleic Acids Research, 47, 3072-3085.
33. Bullard, J., Cai, Y.-C., Demeler, B. and Spremulli, L. (1999) Expression and characterization of a human mitochondrial phenylalanyl-tRNA synthetase. Journal of molecular biology, 288, 567-577.
34. Bullard, J., Cai, Y.-C. and Spremulli, L. (2000) Expression and characterization of the human mitochondrial leucyl-tRNA synthetase. Biochimica et biophysica acta, 1490, 245-258.
35. Arutaki, M., Kurihara, R., Matsuoka, T., Inami, A., Tokunaga, K., Ohno, T., Takahashi, H., Takano, H., Ando, T., Mutsuro-Aoki, H. et al. (2020) G:U-Independent RNA Minihelix Aminoacylation by Nanoarchaeum equitans Alanyl-tRNA Synthetase: An Insight into the Evolution of Aminoacyl-tRNA Synthetases. Journal of Molecular Evolution, 88.
36. Brown, J. and Doolittle, W. (1997) Archaea and the prokaryote-to-eukaryote transition. Microbiology and molecular biology reviews : MMBR, 61, 456-502.
37. Chihade, J., Brown, J., Schimmel, P. and Pouplana, L. (2000) Origin of mitochondria in relation to evolutionary history of eukaryotic alanyl-tRNA synthetase. Proceedings of the National Academy of Sciences of the United States of America, 97, 12153-12157.
38. Frazer-Abel, A. and Hagerman, P. (2008) Core flexibility of a truncated metazoan mitochondrial tRNA. Nucleic acids research, 36, 5472-5481.
39. Kumar, S., Stecher, G., Li, M., Knyaz, C. and Tamura, K. (2018) MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Molecular biology and evolution, 35.
40. Thompson, J., Higgins, D.G. and Gibson, I.J. (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22, 1673-1680.
41. Whelan, S. and Goldman, N. (2001) A General Empirical Model of Protein Evolution Derived from Multiple Protein Families Using a Maximum Likelihood Approach. Molecular biology and evolution, 18, 691-699. |