Scripps Research Logo

Scripps Laboratories for tRNA Synthetase Research

Publications

Complete Publication List of Xiang-Lei Yang, Ph.D.

74. Blocquel, D., Li, S., Wei, N., Daub, H., Sajish, M., Erfurth, M-L., Kooi, G., Zhou, J., Bai, G., Schimmel, P., Jordanova, A., Yang, X.-L. (2017) Alternative stable conformation capable of protein misinteraction links tRNA synthetase to peripheral neuropathy.  Nucleic Acids Res., in press.

73. Sleigh, J.N., Dawes, J.M., West, S.J., Wei, N., Spaulding, E.L., Gómez-Martín, A., Zhang, Q., Burgess, R.W., Cader, M.Z., Talbot, K., Yang, X.L., Bennett, D.L., Schiavo, G. (2017) Trk receptor signaling and sensory neuron fate are perturbed in human neuropathy caused by Gars mutations. Proc. Natl. Acad. Sci. U S A 114:E3324-E3333.

72.  Atkinson, D., Nikodinovic Glumac, J., Asselbergh, B., Ermanoska, B., Blocquel, D., Steiner, R., Estrada-Cuzcana, A., Peeters, K., Ooms, T., De Vriendt, E., Yang, X-L., Hornemann, T., Milic Rasic, V., Jordanova, A. (2017) Sphingosine 1-phosphate lyase deficiency causes Charcot-Marie-Tooth neuropathy.  Neurology 88:533-542.

71. Shi, Y., Wei. N., Yang, X-L. (2017). Studying nuclear functions of aminoacyl tRNA synthetases. Methods 113:105-110.

70. 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. Proc Natl Acad Sci U.S.A.  113: 14300-14305

69. Sun L., Gomes, AC., He, W., Zhou, H., Wang, X., Pan, DW., Schimmel, Pan, T., Yang, X-L. (2016). Evolutionary Gain of Alanine Mischarging to Noncognate tRNAs with a G4:U69 base pair. J. Am Chem Soc. 138: 12948-12955.

68. Mo, Z., Zhang, Q., Lauer, J., Shi, Y., Sun, L., Griffin, P.R., Yang, X-L. (2016). Neddylation requires glycyl-tRNA synthetase to protect activated E2.  Nat. Struct. Mol. Biol. 23:730-737.

67. Wei, Z., Xu, Z., Lo, W.S., Ye, F., Lau, C.F., Wang, F., Zhou, J.J., Nangle, L.A., Yang, X-L., Zhang M., Schimmel, P. (2016) Alternative splicing creates two new architectures for human tyrosyl-tRNA synthetase. Nuclei Acids Res. 44: 1247-1255.

66. He, W., Bai, G., Zhou, H., Wei, N., White, M. N., Lauer, J., Liu, H., Shi, Y., Dumitru, C. D., Lettieri, K., Shubayev, V., Jordanova, A., Guergueltcheva, V., Griffin, P. L., Burgess, R. W., Pfaff, S. L., and Yang, X.-L. (2015). CMT2D neuropathy is linked to the neomorphic binding activity of glycyl-tRNA synthetase. Nature 526: 710-714.

65. Niehues, S., Bussmann, J., Steffes, G., Erdmann, I., Kohrer, C., Sun, L., Wagner, M., Schafer, K., Wang, G., Koerdt, S. N., Stum, M., RajBhandary, U. L., Thomas, U., Aberle, H., Burgess, R. W., Yang, X.-L., Dieterich, D., and Storkebaum, E. (2015). Impaired protein translation in Drosophila models for Charcot-Marie-Tooth neuropathy caused by mutant tRNA synthetases. Nat. Commun. 6: 7520.

64. Yang, X.-L. (2014). tRNA-derived G-quadruplex protects motor neurons. Proc. Natl. Acad. Sci. U S A. 111: 18108-18109.

63. Wei, N., Shi, Y., Truong, L. N., Fisch, K. M., Xu, T., Gardiner, E., Fu, G., Hsu, Y. S., Kishi, S., Su, A. I., Wu, X., and Yang, X.-L. (2014). Oxidative stress diverts tRNA synthetase to nucleus for protection against DNA damage. Mol. Cell 56: 323-332.

62. Ishimura, R., Nagy, G., Dotu, I., Zhou, H., Yang, X.-L., Schimmel, P,. Senju, S., Nishimura, Y., Chuang. J. H., and Ackerman, S. L. (2014). Ribosome stalling induced by mutation of a CNS-specific tRNA causes neurodegeneration. Science 345: 455-459.

61. Lo, W.-S., Gardiner, E., Xu, Z., Lau, C.-F., Wang, F., Zhou, J. J., Mendlein, J. D., Nangle, L. A., Chiang, K. P., Yang, X.-L., Au, K.-F., Wong, W. H., Guo, M., Zhang, M., and Schimmel, P. (2014). Human tRNA synthetase catalytic nulls with diverse functions. Science 345: 328-332.

60. Naganuma, M., Sekine, S., Chong, Y. E., Guo, M., Yang, X.-L., Gamper, H., Hou, Y.-M., Schimmel, P., and Yokoyama, S. (2014). The selective tRNA aminoacylation mechanism based on a single G·U pair. Nature 510: 507-511.

59. Shi, Y., Xu, X., Zhang, Q., Fu, G., Mo, Z., Wang, G. S., Kishi, S., and Yang, X.-L.* (2014). tRNA synthetase counteracts c-Myc to develop functional vasculature. eLife 3: e02349. (*Corresponding author).

58. Zhou, M. J., Wang, F., Xu, Z., Lo, W.-S., Lau, C.-F., Chiang, K. P., Nangle, L. A., Ashlock, M. A., Mendlein, J. D., Yang, X.-L., Zhang, M., and Schimmel, P. (2014). Secreted histidyl-tRNA synthetase splice variants elaborate major epitopes for autoantibodies in inflammatory myositis. J. Biol. Chem. 289: 19269-19275.

57. Yang, X.-L. (2013). Structural disorder in expanding the functionome of aminoacyl-tRNA synthetases. Chem. Biol. 20: 1093-1099.

56. Guo, M. and Yang, X.-L. (2014). Architecture and metamorphosis. Top. Curr. Chem. 344: 89–118. (Epub 2013).

55. Wang, F., Xu, Z., Zhou, J. J., Lo, W. S., Lau, C. F., Nangle, L. A., Yang, X.-L., Zhang, M., and Schimmel, P. (2013). Regulated capture by exosomes of mRNAs for cytoplasmic tRNA synthetases. J. Biol. Chem. 288: 29223-29228.

54. Xu, X., Shi, Y., and Yang, X.-L.* (2013). Crystal structure of human seryl-tRNA synthetase and Ser-SA complex reveals a molecular lever specific to higher eukaryotes. Structure 21: 2078-2086 (*Corresponding author).

53. Gonzalez, M., McLaughlin, H., Houlden, H., Guo, M., Yo-Tsen, L., Hadjivassilious, M., Speziani, F., Yang, X.-L., Antonellis, A., Reilly, M..M., and Züchner, S. (2013). Exome sequencing identifies a significant variant in methionyl-tRNA synthetase (MARS) in a family with late-onset CMT2. J. Neurol. Neurosurg. Psychiatry 84: 1247-1249.

52. Zhou, H., Sun, L., Yang, X.-L., and Schimmel, P. (2013). ATP-directed capture of bioactive herbal-based medicine on human tRNA synthetase. Nature 494: 121–124.

51. Ofir-Birin, Y., Fang, P., Bennett, S. P., Zhang, H.-M., Wang, J., Rachmin, I., Shapiro, R., Song, J., Dagan, A., Pozo, J., Kim, S., Marshall, A. G., Schimmel, P., Yang, X.-L., Nechushtan, H., Razin, E., and Guo, M. (2013). Structural switch of lysyl-tRNA synthetase between translation and transcription. Mol. Cell 49: 30–42.

50. Xu, Z., Wei, Z., Zhou, J. J., Ye, F., Lo, W. S., Wang, F., Lau, C. F., Wu, J., Nangle, L. A., Chiang, K. P., Yang, X.-L., Zhang, M., and Schimmel, P. (2012). Internally deleted human tRNA synthetase suggests evolutionary pressure for repurposing. Structure 20: 1470–1477.

49. Lee, P. S., Zhang, H.-M., Marshall, A. G., Yang, X.-L., and Schimmel, P. (2012). Uncovering of a short internal peptide activates a tRNA synthetase procytokine. J. Biol. Chem. 287: 20504-20508.

48. Mathew, S., Zhou, Q., Kishi, S., Valdez Jr, D. M., Kapoor, M., Guo, M., Lee, S., Kim, S., Yang, X.-L., and Schimmel, P. (2012). Trp-tRNA synthetase bridges DNA-PKcs to PARP-1 to link IFN-γ and p53 signaling. Nat. Chem. Biol. 8: 547-554.

47. Park, M. C., Kang, T., Jin, D., Han, J. M., Kim, S. B., Park, Y. J., Cho, K., Park, Y. W., Guo, M., He, W., Yang, X.-L., Schimmel, P., and Kim, S. (2012). Secreted human glycyl-tRNA synthetase implicated in defense against ERK-activated tumorigenesis. Proc. Natl. Acad. Sci. U S A. 109: E640-647.

46. Xu, X., Shi, Y., Zhang, H.-M., Swindell, E. C., Marshall, A. G., Guo, M., Kishi, S., and Yang, X.-L.* (2012). Unique domain appended to vertebrate tRNA synthetase is essential for vascular development. Nat. Commun. 3: 681. (*Corresponding author).

45. Fu, G., Xu, T., Shi, Y., Wei, N., Yang, X.-L.* (2012). tRNA-controlled nuclear import of a human tRNA synthetase. J. Biol. Chem. 287: 9330-9334. (*Corresponding author).

44. Motley, W. W., Seburn, K. L., Nawaz, M. H., Miers, K. E., Cheng, J., Antonellis, A., Green, E. D., Talbot, K., Yang, X.-L., Fischbeck, K. H., and Burgess, R. W. (2011). Charcot-Marie-Tooth-linked mutant GARS is toxic to peripheral neurons independent of wild-type GARS levels. PLoS Genet. 7: e1002399.

43. Yang, X.-L.* and Schimmel, P. (2011). Functional expansion of the tRNA world under stress. Mol. Cell 43: 500-502. (*Corresponding author).

42. He, W., Zhang, H.-M., Chong, Y. E., Guo, M., Marshall, A. G., and Yang, X.-L.* (2011). Dispersed disease-causing neomorphic mutations on a single protein promote the same localized conformational opening. Proc. Natl. Acad. Sci. U S A. 108: 12307-12312. (*Corresponding author).

41. Fang, P., Zhang, H.-M., Shapiro, R., Marshall, A. G., Schimmel, P., Yang, X.-L.*, and Guo, M. (2011). Structural context for mobilization of a human tRNA synthetase from its cytoplasmic complex. Proc. Natl. Acad. Sci. U S A. 108: 8239-8244. (*Co-corresponding author).

40. Nawaz, M. H., Merriman, E., Yang, X.-L., and Schimmel, P. (2011). p23H implicated as cis/trans regulator of AlaXp-directed editing for mammalian cell homeostasis. Proc. Natl. Acad. Sci. U S A. 108: 2723-2728.

39. Vo, M. N., Yang, X.-L.* and Schimmel, P. (2011). Dissociating quaternary structure regulates cell-signaling functions of a secreted human tRNA synthetase. J. Biol. Chem. 286: 11563-11568. (*Co-corresponding author).

38. Guo, M., Shapiro, R., Morris, G. M., Yang, X.-L., and Schimmel, P. (2010). Packaging HIV virion components through dynamic equilibria of a human tRNA synthetase. J. Phys. Chem. 114: 16273-16279.

37. Han, G. W., Yang, X.-L., et al. (2010). Structure of a tryptophanyl-tRNA synthetase containing an iron-sulfur cluster. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 66: 1326-1334.

36. Guo, M., Yang, X.-L. and Schimmel, P. (2010). New functions of aminoacyl-tRNA synthetases beyond translation. Nat. Rev. Mol. Cell Biol. 11: 668-674.

35. Guo, M., Shapiro, R., Schimmel, P. and Yang, X.-L.* (2010). Introduction of a leucine half-zipper engenders multiple high-quality crystals of a recalcitrant tRNA synthetase. Acta Crystallogr. D Biol. Crystallogr. 66: 243-250. (*Corresponding author).

34. Guo, M., Schimmel, P., and Yang, X.-L.* (2010). Functional expansion of human tRNA synthetases achieved by structural inventions. FEBS Lett. 584: 434-442. (*Corresponding author).

33. Zhou, Q., Kapoor, M., Guo, M., Belani, R., Xu, X., Kiosses, W. B., Hanan M., ParK, C., Armour, E., Do, M.-H., Nangle, L. A., Schimmel, P., and Yang, X.-L.* (2010). Orthogonal use of a human tRNA synthetase active site to achieve multifunctionality. Nat. Struc. Mol. Biol. 17: 57-61. (*Corresponding author).

32. Guo, M., Chong, Y. E., Shapiro, R., Beebe, K., Yang, X.-L., and Schimmel, P. (2009). Paradox of mistranslation of serine for alanine caused by AlaRS recognition dilemma. Nature 462: 808-812.

31. Guo, R.-T., Chong, Y. E., Guo, M., and Yang, X.-L.* (2009). Crystal structures and biochemical analyses suggest a unique mechanism and role for human glycl-tRNA synthetase in Ap4A homeostasis. J. Biol. Chem. 284: 28968-28976. (*Corresponding author).

30. Guo, M., Chong, Y. E., 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 325: 744-747.

29. Storkebaum, E., Leitão-Gonçalves, R., Godenschwege, T., Nangle, L., Mejia, M., Bosmans, I., Ooms, T., Jacobs, A., Van Dijck, P., Yang, X.-L., Schimmel, P., Norga, K., Timmerman, V., Callaerts, P., and Jordanova, A. (2009). Dominant mutations in the tyrosyl-tRNA synthetase gene recapitulate in Drosophila features of human Charcot-Marie-Tooth neuropathy. Proc. Natl. Acad. Sci. U S A. 106: 11782-11787.

28. Kapoor, M., Otero, F. J., Slike, B. M., Ewalt, K. L., and Yang, X.-L.* (2009). Mutational separation of aminoacylation and cytokine activities of human tyrosyl-tRNA synthetase. Chem. Biol. 16: 531–539. (*Corresponding author).

27. Chong, Y. E., Yang, X.-L., and Schimmel, P. (2008). Natural homolog of tRNA synthetase editing domain rescues conditional lethality caused by mistranslation. J. Biol. Chem. 283: 30073-30078.

26. Cheng, G., Zhang, H., Yang X.-L., Tzima, E., Ewalt, K. L., Schimmel, P., and Faber, J. E. (2008). Effect of mini-tyrosyl-tRNA synthetase on ischemic angiogenesis, leukocyte recruitment and vascular permeability. Am. J. Physiol. Regul. Integr. Comp. Physiol. 295: R1138-1146.

25. Guo, M., Ignatov, M., Musier-Forsyth, K., Schimmel, P., and Yang, X.-L.* (2008). Crystal structure of tetrameric form of human lysyl-tRNA synthetase: Implications for multisynthetase complex formation. Proc. Natl. Acad. Sci. U S A. 105: 2331-2336. (*Corresponding author).

24. Greenberg, Y., Kiosses, W. B., Ewalt, K., Yang, X.-L., Schimmel, P., Reader, J. S., and Tzima, E. (2008). The novel fragment of tyrosyl tRNA synthetase, mini-TyrRS, is secreted to induce an angiogenic response in endothelial cells. FASEB J. 22: 1597-1605.

23. Kapoor, M., Zhou, Q., Otero, F., Myers, C. A., Bates, A., Belani, R., Liu, J., Luo, J. K., Tzima, E., Zhang, D.-E., Yang, X.-L., and Schimmel P. (2008). Evidence for annexin II/S100A10 complex and plasmin in mobilization of cytokine activity of human TrpRS. J. Biol. Chem. 283: 2070-2077.

22. Yang, X.-L.*, Kapoor, M., Otero, F. J., Slike, B. Tsuruta, H., Frausto, R., Bates, A., Ewalt, K. L., Cheresh, D. A., and Schimmel, P. (2007). Gain-of-function mutational activation of human tRNA synthetase procytokine. Chem. Biol. 14: 1323-1333. (*Corresponding author).

21. Nangle, L. A., Zhang, W., Xie, W., Yang, X.-L.,* and Schimmel, P. (2007). Charcot-Marie-Tooth disease-associated mutant tRNA synthetases linked to altered dimer interface and neurite distribution defect. Proc. Natl. Acad. Sci. U S A. 104: 11239-11244. (*Co-corresponding author).

20. Xie, W., Nangle, L. A., Zhang, W., Schimmel, P., and Yang, X.-L.* (2007). Long-range structural effects of a Charcot-Marie-Tooth disease-causing mutation in human glycyl-tRNA synthetase. Proc. Natl. Acad. Sci. U S A. 104: 9976-9981. (*Co-corresponding author).

19. Yang, X.-L.*, Guo, M., Kapoor, M., Ewalt, K. L., Otero, F. J., Skene, R. J., McRee, D. E., and Schimmel, P. (2007). Functional and crystal structure analysis of active site adaptations of a potent anti-angiogenic human tRNA synthetase. Structure 15: 793-805. (*Corresponding author).

18. Schimmel, P. and Yang, X.-L. (2006). Perfecting the genetic code with an RNP complex. Structure 14: 1729-1730.

17. Xie, W., Schimmel, P., and Yang, X.-L.* (2006). Crystallization and preliminary X-ray analysis of a native human tRNA synthetase whose allelic variants are associated with Charcot-Marie-Tooth disease. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 62: 1243-1246. (*Corresponding author).

16. Yang, X.-L.*, Otero, F. J. , Ewalt, K. L., Liu, J., Swairjo, M. A., Kohrer, C., RajBhandary, U. L., Skene, R. J., McRee, D. E., and Schimmel, P. (2006). Two conformations of a crystalline human tRNA synthetase-tRNA complex: Implications for protein synthesis. EMBO J. 25: 2919-2929. (*Corresponding author).

15. Ewalt, K. L., Yang, X.-L., Otero, F. J., Liu, J., Slike, B., and Schimmel, P. (2005). Variant of human enzyme sequesters reactive intermediate. Biochemistry 44: 4216-4221.

14. Schimmel, P. and Yang, X.-L. (2004). Two classes give lessons about CCA. Nat. Struct. Mol. Biol. 11: 807-808.

13. Yang, X.-L., Schimmel, P., and Ewalt, K. L. (2004). Relationship of two human tRNA synthetases used in cell signaling. Trends Biochem. Sci. 29: 250-256.

12. Swairjo, M. A., Otero, F. J., Yang, X.-L., Lovato, M. A., Skene, R. J., McRee, D. E., Ribas de Pouplana, L., and Schimmel, P. (2004). Alanyl-tRNA synthetase crystal structure and design for acceptor-stem recognition. Mol. Cell 13: 829-841.

11. Yang, X.-L., Otero, F. J. , Skene, R. J., McRee, D. E., Schimmel, P., and Ribas de Pouplana, L. (2003). Crystal structures that suggest late development of genetic code components for differentiating aromatic side chains. Proc. Natl. Acad. Sci. U S A. 100: 15376-15380.

10. Yang, X.-L, Liu, J., Skene, R. J., McRee, D. E., and Schimmel, P. (2003). Crystal structure of an EMAP-II-like cytokine released from a human tRNA synthetase. Helv. Chim. Acta. 86: 1246-1257.

9. Liu, J., Yang, X.-L, Ewalt, K. L., and Schimmel, P. (2002). Mutational switching of a yeast tRNA synthetase into a mammalian-like synthetase cytokine. Biochemistry 41: 14232-14237.

8. Yang, X.-L., Skene, R. J., McRee, D. E., and Schimmel, P. (2002). Crystal structure of a human aminoacyl-tRNA synthetase cytokine. Proc. Natl. Acad. Sci. U S A. 99: 15369-15374.

7. Robinson, H., Gao, Y.-G., Yang, X.-L., Sanishvili, R., Joachimiak, A., and Wang, A. H.-J. (2001). Crystallographic analysis of a novel complex of actinomycin D bound to the DNA decamer CGATCGATCG. Biochemistry 40: 5587-5592.

6. Yang, X.-L., Robinson H, Gao, Y.-G., and Wang, A. H.-J. (2000). Binding of a macrocyclic bisacridine and ametantrone to CGTACG involves similar unusual intercalation platforms. Biochemistry 39: 10950-10957.

5. Yang, X.-L., Hubbard IV, R. B., Lee, M., Tao, Z.-F., Sugiyama, H., and Wang, A. H.-J. (1999). Imidazole-imidazole pair as a minor groove recognition motif for T:G mismatched base pairs. Nucleic Acids Res. 27: 4183-4190.

4. Yang, X.-L. and Wang, A. H.-J. (1999). Structural studies of atom-specific anticancer drugs acting on DNA. Pharmacol. Ther. 83: 181-215.

3. Yang, X.-L., Kaenzig, C., Lee, M., and Wang, A. H.-J. (1999). Binding of AR-1-144, a tri-imidazole DNA minor groove binder, to CCGG sequence analyzed by NMR spectroscopy. Eur. J. Biochem. 263: 646-655.

2. Yang, X.-L., Sugiyama, H., Ikeda, S., Saito, I., and Wang, A. H.-J. (1998). Structural studies of a stable parallel-stranded DNA duplex incorporating isoguanine:cytosine and isocytosine:guanine basepairs by nuclear magnetic resonance spectroscopy. Biophysical J. 75: 1163-1171.

1. Yang, X.-L. and Wang, A. H.-J. (1997). Structural analysis of Z-Z DNA junctions with A:A and T:T mismatched base pairs by NMR. Biochemistry 36: 4258-4267.

___________

Lab Home
___________

About SLTSR
___________

Joining SLTSR
___________

Principal Investigators
___________

Lab Members
___________

Collaborators
___________

Publications
___________

News
___________

Photos
___________

Contact Us
___________

Members Only
___________