Yanhui Xu, Ph.D.

Education

• 1999.9~2004.7，PhD in Biophysics, advisor: Zihe Rao

Department of Biological Sciences and Technology,Tsinghua University, Beijing, China

• 1995.9~1999.7，Bachelor of Science,

Department of Biological Sciences and Technology,Tsinghua University, Beijing, China

Work experience

• 2017.03~Now Professor

Fudan University Shanghai Cancer Center, China

Institutes of Biomedical Sciences, Fudan University, China (joint position)

• 2008.10~2017.03 Professor

Institutes of Biomedical Sciences, Fudan University, China

• 2008.01~2008.10 Associate Professor

Institutes of Biomedical Sciences, Fudan University, China

• 2004.11~2007.12 Postdoctoral fellow (Research Associate), advisor: Yigong Shi

Department of Molecular Biology, Princeton University,Princeton, NJ, USA

Contact

Institutes of Biomedical Sciences, Fudan University, Shanghai 200032

Tel: +86-021-54237880

Email: xuyh@fudan.edu.cn, xulab@foxmail.com

Lab homepage: http://xulab.fudan.edu.cn/

Research interest

In eukaryotic organisms, cell-type-specific gene expression is mediated by combinatorial action of transcription factors and transcription machineries in the context of chromatin, which provides framework for differential gene expression and cell fate determination during development. Regulatory proteins, RNA, noncoding bits of DNA, even chemical and structural alterations of the genome itself control how, where, and when genes are expressed. We want to reveal the structural basis of the dynamic regulation of chromatin structure and molecular mechanism for transcription in the context of chromatin.

Awards and Honors

2021 Top 10 Advances in Life Sciences of 2021 in China

2021 Xplorer Prize

2016 The First Prize in Natural Science Award of the Ministry of Education

2016 VCANBIO Award for Innovations and Breakthroughs in Life Sciences and Medicine

2016 Chief scientist of National Research and Development Program of China

2016 China Outstanding Youth Award for Science and Technology

2016 China Youth Award for Science and Technology

2015 Changjiang Scholars Program–Distinguished Professor

2015 Tan Jiazhen Life Sciences Award

2015 Academician Shusen Lanjuan Talent Foundation

2015 WuXi PharmaTech Life Chemistry Award

2014 National Science Fund for Distinguished Young Scholars

2014 Shanghai Youth Award for Science and Technology

2014 Program of Shanghai Subject Chief Scientist

2012 Outstanding Young Scholar

2012Meiji Life Sciences Awards (Outstanding)

Selected Publications

1. Chen, X., Yin, X., Li, J., Wu, Z., Qi, Y., Wang, X., Liu, W., and Xu, Y.* (2021) Structures of the human Mediator and Mediator-bound preinitiation complex. Science 372, eabg0635

2. Chen, X., Qi, Y., Wu, Z., Wang, X., Li, J., Zhao, D., Hou, H., Li, Y., Yu, Z., Liu, W., Wang, M., Ren, Y., Li, Z., Yang, H., and Xu, Y.* (2021) Structural insights into preinitiation complex assembly on core promoters. Science 372, eaba8490

3. Zheng, H., Qi, Y., Hu, S., Cao, X., Xu, C., Yin, Z., Chen, X., Li, Y., Liu, W., Li, J., Wang, J., Wei, G., Liang, K., Chen, F. X.*, and Xu, Y.* (2020) Identification of Integrator-PP2A complex (INTAC), an RNA polymerase II phosphatase. Science 370, eabb5872

4. He, S., Wu, Z., Tian, Y., Yu, Z., Yu, J., Wang, X., Li, J., Liu, B., and Xu, Y.* (2020) Structure of nucleosome-bound human BAF complex. Science 367, 875-881

5. Guo, X., Wang, L., Li, J., Ding, Z., Xiao, J., Yin, X., He, S., Shi, P., Dong, L., Li, G., Tian, C., Wang, J., Cong, Y., and Xu, Y.* (2015) Structural insight into autoinhibition and histone H3-induced activation of DNMT3A. Nature 517, 640-644

6. Hu, L., Lu, J., Cheng, J., Rao, Q., Li, Z., Hou, H., Lou, Z., Zhang, L., Li, W., Gong, W., Liu, M., Sun, C., Yin, X., Li, J., Tan, X., Wang, P., Wang, Y., Fang, D., Cui, Q., Yang, P., He, C., Jiang, H., Luo, C.*, and Xu, Y.* (2015) Structural insight into substrate preference for TET-mediated oxidation. Nature 527, 118-122

7. Hu, L., Li, Z., Cheng, J., Rao, Q., Gong, W., Liu, M., Shi, Y. G., Zhu, J., Wang, P., and Xu, Y.* (2013) Crystal structure of TET2-DNA complex: insight into TET-mediated 5mC oxidation. Cell 155, 1545-1555

8. Zhao, D., Liu, W., Chen, K., Wu, Z., Yang, H., and Xu, Y.* (2021) Structure of the human RNA polymerase I elongation complex. Cell Discov 7, 97

9. Hou, H., Li, Y., Wang, M., Liu, A., Yu, Z., Chen, K., Zhao, D., and Xu, Y.* (2021) Structural insights into RNA polymerase III-mediated transcription termination through trapping poly-deoxythymidine. Nat Commun 12, 6135

10. Li, L., Yu, Z., Zhao, D., Ren, Y., Hou, H.*, and Xu, Y.* (2021) Structure of human RNA polymerase III elongation complex. Cell Res 31, 791-800

11. Yang, H., Yu, Z., Chen, X., Li, J., Li, N., Cheng, J., Gao, N., Yuan, H. X., Ye, D., Guan, K. L., and Xu, Y.* (2021) Structural insights into TSC complex assembly and GAP activity on Rheb. Nat Commun 12, 339

12. Pan, B., Yang, Y., Li, J., Wang, Y., Fang, C., Yu, F. X.*, and Xu, Y.* (2020) USP47-mediated deubiquitination and stabilization of YAP contributes to the progression of colorectal cancer. Protein Cell 11, 138-143

13. Xiao, J., Liu, M., Qi, Y., Chaban, Y., Gao, C., Pan, B., Tian, Y., Yu, Z., Li, J., Zhang, P., and Xu, Y.* (2019) Structural insights into the activation of ATM kinase. Cell Res 29, 683-685

14. Zhu, L., Li, L., Qi, Y., Yu, Z., and Xu, Y.* (2019) Cryo-EM structure of SMG1-SMG8-SMG9 complex. Cell Res 29, 1027-1034

15. Rao, Q., Liu, M., Tian, Y., Wu, Z., Hao, Y., Song, L., Qin, Z., Ding, C., Wang, H. W.*, Wang, J.*, and Xu, Y.* (2018) Cryo-EM structure of human ATR-ATRIP complex. Cell Res 28, 143-156

16. Chen, X., Liu, M., Tian, Y., Li, J., Qi, Y., Zhao, D., Wu, Z., Huang, M., Wong, C. C. L., Wang, H. W., Wang, J., Yang, H.*, and Xu, Y.* (2018) Cryo-EM structure of human mTOR complex 2. Cell Res 28, 518-528

17. Feng, Y., Tian, Y., Wu, Z., and Xu, Y.* (2018) Cryo-EM structure of human SRCAP complex. Cell Res 28, 1121-1123

18. Yin, X., Liu, M., Tian, Y., Wang, J., and Xu, Y.* (2017) Cryo-EM structure of human DNA-PK holoenzyme. Cell Res 27, 1341-1350

19. Yang, H., Wang, J., Liu, M., Chen, X., Huang, M., Tan, D., Dong, M. Q., Wong, C. C., Wang, J., Xu, Y.*, and Wang, H. W.* (2016) 4.4 A Resolution Cryo-EM structure of human mTOR Complex 1. Protein Cell 7, 878-887

20. Fang, J., Cheng, J., Wang, J., Zhang, Q., Liu, M., Gong, R., Wang, P., Zhang, X., Feng, Y., Lan, W., Gong, Z., Tang, C., Wong, J., Yang, H., Cao, C., and Xu, Y.* (2016) Hemi-methylated DNA opens a closed conformation of UHRF1 to facilitate its histone recognition. Nat Commun 7, 11197

21. Yang, Y., Yin, X., Yang, H., and Xu, Y.* (2015) Histone demethylase LSD2 acts as an E3 ubiquitin ligase and inhibits cancer cell growth through promoting proteasomal degradation of OGT. Mol Cell 58, 47-59

22. Cheng, J., Yang, H., Fang, J., Ma, L., Gong, R., Wang, P., Li, Z., and Xu, Y.* (2015) Molecular mechanism for USP7-mediated DNMT1 stabilization by acetylation. Nat Commun 6, 7023

23. Cheng, J., Li, Z., Gong, R., Fang, J., Yang, Y., Sun, C., Yang, H., and Xu, Y.* (2015) Molecular mechanism for the substrate recognition of USP7. Protein Cell 6, 849-852

24. Gong, R., Hong, A. W., Plouffe, S. W., Zhao, B., Liu, G., Yu, F. X.*, Xu, Y.*, and Guan, K. L.* (2015) Opposing roles of conventional and novel PKC isoforms in Hippo-YAP pathway regulation. Cell Res 25, 985-988

25. Zhu, T., Roundtree, I. A., Wang, P., Wang, X., Wang, L., Sun, C., Tian, Y., Li, J., He, C., and Xu, Y.* (2014) Crystal structure of the YTH domain of YTHDF2 reveals mechanism for recognition of N6-methyladenosine. Cell Res 24, 1493-1496

26. Chen, F., Yang, H., Dong, Z., Fang, J., Wang, P., Zhu, T., Gong, W., Fang, R., Shi, Y. G., Li, Z.*, and Xu, Y.* (2013) Structural insight into substrate recognition by histone demethylase LSD2/KDM1b. Cell Res 23, 306-309

27. Fang, R., Chen, F., Dong, Z., Hu, D., Barbera, A. J., Clark, E. A., Fang, J., Yang, Y., Mei, P., Rutenberg, M., Li, Z., Zhang, Y., Xu, Y., Yang, H., Wang, P., Simon, M. D., Zhou, Q., Li, J., Marynick, M. P., Li, X., Lu, H., Kaiser, U. B., Kingston, R. E., Xu, Y.*, and Shi, Y. G.* (2013) LSD2/KDM1B and its cofactor NPAC/GLYR1 endow a structural and molecular model for regulation of H3K4 demethylation. Mol Cell 49, 558-570

28. Ma, H., Chen, H., Guo, X., Wang, Z., Sowa, M. E., Zheng, L., Hu, S., Zeng, P., Guo, R., Diao, J., Lan, F., Harper, J. W., Shi, Y. G., Xu, Y.*, and Shi, Y.* (2012) M phase phosphorylation of the epigenetic regulator UHRF1 regulates its physical association with the deubiquitylase USP7 and stability. Proc Natl Acad Sci U S A 109, 4828-4833

29. Hu, L., Li, Z., Wang, P., Lin, Y., and Xu, Y.* (2011) Crystal structure of PHD domain of UHRF1 and insights into recognition of unmodified histone H3 arginine residue 2. Cell Res 21, 1374-1378

30. Gong, R., Li, L., Liu, Y., Wang, P., Yang, H., Wang, L., Cheng, J., Guan, K. L.*, and Xu, Y.* (2011) Crystal structure of the Gtr1p-Gtr2p complex reveals new insights into the amino acid-induced TORC1 activation. Genes Dev 25, 1668-1673

31. Yang, Y., Hu, L., Wang, P., Hou, H., Lin, Y., Liu, Y., Li, Z., Gong, R., Feng, X., Zhou, L., Zhang, W., Dong, Y., Yang, H., Lin, H., Wang, Y., Chen, C. D.*, and Xu, Y.* (2010) Structural insights into a dual-specificity histone demethylase ceKDM7A from Caenorhabditis elegans. Cell Res 20, 886-898

32. Li, Z., Zhao, B., Wang, P., Chen, F., Dong, Z., Yang, H., Guan, K. L.*, and Xu, Y.* (2010) Structural insights into the YAP and TEAD complex. Genes Dev 24, 235-240