Education

Ph.D. in Biomolecular Chemistry, University of Wisconsin-Madison, 2009

Current position

Earl Stadtman Tenure-Track Investigator, Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, NIH

Publications (since 2005)

1. Zhang, J. and Ferre-D'Amare, A. R. (2015). Structure and mechanism of the T-box riboswitches. Wiley Interdiscip Rev RNA 6(4): 419-433.
   
2. Liu, Y., Holmstrom, E., Zhang, J., Yu, P., Wang, J., Dyba, M. A., Chen, D., Ying, J., Lockett, S., Nesbitt, D. J., Ferre-D'Amare, A. R., Sousa, R., Stagno, J. R. and Wang, Y. X. (2015). Synthesis and applications of RNAs with position-selective labelling and mosaic composition. Nature 522(7556): 368-372.
   
3. Miao, Z., Adamiak, R. W., Blanchet, M. F., Boniecki, M., Bujnicki, J. M., Chen, S. J., Cheng, C., Chojnowski, G., Chou, F. C., Cordero, P., Cruz, J. A., Ferre-D'Amare, A. R., Das, R., Ding, F., Dokholyan, N. V., Dunin-Horkawicz, S., Kladwang, W., Krokhotin, A., Lach, G., Magnus, M., Major, F., Mann, T. H., Masquida, B., Matelska, D., Meyer, M., Peselis, A., Popenda, M., Purzycka, K. J., Serganov, A., Stasiewicz, J., Szachniuk, M., Tandon, A., Tian, S., Wang, J., Xiao, Y., Xu, X., Zhang, J., Zhao, P., Zok, T. and Westhof, E. (2015). RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures. RNA 21(6): 1066-1084.
   
4. Lageix, S., Zhang, J., Rothenburg, S. and Hinnebusch, A. G. (2015). Interaction between the tRNA-binding and C-terminal domains of Yeast Gcn2 regulates kinase activity in vivo. PLoS Genet 11(2): e1004991.
   
5. Windgassen, T. A., Mooney, R. A., Nayak, D., Palangat, M., Zhang, J. and Landick, R. (2014). Trigger-helix folding pathway and SI3 mediate catalysis and hairpin-stabilized pausing by Escherichia coli RNA polymerase. Nucleic Acids Res 42(20): 12707-12721.
   
6. Zhang, J. and Ferre-D'Amare, A. R. (2014). A flexible, scalable method for preparation of homogeneous aminoacylated tRNAs. Methods Enzymol 549: 105-113.
   
7. Zhang, J. and Ferre-D'Amare, A. R. (2014). Dramatic improvement of crystals of large RNAs by cation replacement and dehydration. Structure 22(9): 1363-1371.
   
8. Zhang, J. and Ferre-D'Amare, A. R. (2014). Direct evaluation of tRNA aminoacylation status by the T-box riboswitch using tRNA-mRNA stacking and steric readout. Mol Cell 55(1): 148-155.
   
9. Zhang, J., Jones, C. P. and Ferre-D'Amare, A. R. (2014). Global analysis of riboswitches by small-angle X-ray scattering and calorimetry. Biochim Biophys Acta 1839(10): 1020-1029.
   
10. Zhang, J. and Ferre-D'Amare, A. R. (2014). New molecular engineering approaches for crystallographic studies of large RNAs. Curr Opin Struct Biol 26: 9-15.
    
11. Zhang, J. and Ferre-D'Amare, A. R. (2013). Co-crystal structure of a T-box riboswitch stem I domain in complex with its cognate tRNA. Nature 500(7462): 363-366.
    
12. Baird, N. J., Zhang, J., Hamma, T. and Ferre-D'Amare, A. R. (2012). YbxF and YlxQ are bacterial homologs of L7Ae and bind K-turns but not K-loops. RNA 18(4): 759-770.
    
13. Zhang, J., Lau, M. W. and Ferre-D'Amare, A. R. (2010). Ribozymes and riboswitches: modulation of RNA function by small molecules. Biochemistry 49(43): 9123-9131.
    
14. Zhang, J., Palangat, M. and Landick, R. (2010). Role of the RNA polymerase trigger loop in catalysis and pausing. Nat Struct Mol Biol 17(1): 99-104.
    
15. Zhang, J., Landick, R., Buc, H. and Strick, T. (2009). Substrate loading, nucleotide addition, and translocation by RNA polymerase. RNA Polymerase as Molecular Motors 1: 206-235.
    
16. Toulokhonov, I.*, Zhang, J.*, Palangat, M. and Landick, R. (2007). A central role of the RNA polymerase trigger loop in active-site rearrangement during transcriptional pausing. Mol Cell 27(3): 406-419. (*Equal contribution)
    
17. Vassylyev, D. G., Vassylyeva, M. N., Zhang, J., Palangat, M., Artsimovitch, I. and Landick, R. (2007). Structural basis for substrate loading in bacterial RNA polymerase. Nature 448(7150): 163-168.
    
18. Kyzer, S., Zhang, J. and Landick, R. (2005). Inhibition of RNA polymerase by streptolydigin: no cycling allowed. Cell 122(4): 494-496.