葉克窮

1995年-浙江大學生物學學士

2000年-中科院生物物理所博士

2001-2005年-斯隆癌症研究所博士后 紐約，美國

2005-2011年-北京生命科學研究所研究員 助理研究員，國家生物科學研究所，北京

2011-2014年-北京生命科學研究所高級研究員 副研究員，國家生物科學研究所，北京

2014年- 中國科學院生物物理研究所研究員，北京

RNA分子在蛋白質翻譯、RNA修飾和加工、基因調控等多種過程中發揮著重要的作用。葉克窮研究員實驗室的主要興趣集中在和RNA生物學相關的結構研究，包括真核生物核糖體的組裝、RNA修飾和RNA沉默等領域，主要使用X射線晶體學、電鏡、核磁共振、生化、酵母遺傳操作等技術手段。

1.真核生物核糖體組裝

蛋白質工廠——核糖體是由RNA和蛋白質組成的超級複合物，它在體內的組裝需要經歷高度複雜的過程。在出芽酵母Saccharomyces cerevisiae中，有200多個保守的蛋白質組裝因子和大量非編碼RNA參與核糖體的組裝。我們以出芽酵母為模式生物，研究核糖體體內組裝的分子過程、組裝因子的結構和功能以及核糖體前體的結構。

2. H/ACA和C/D RNA蛋白質複合物

H/ACA 和 C/D RNA是兩大類古老的非編碼RNA，它們和蛋白質結合形成多元複合物，主要在RNA的假尿嘧啶合成和2'-O甲基化修飾中，發揮結合特異底物的嚮導作用。我們研究H/ACA和C/D 兩類RNA蛋白質複合物的空間結構、生化機制和生物發生過程。

3. RNA沉默

多種小RNA(siRNA,miRNA, crRNA)作為特異性決定因子在真核和原核生物中控制著基因的沉默。我們研究這些小RNA的加工、調控機制和效應複合物。

Selected research publications

Chen W, Xie Z, Yang F,Ye K.*(2017)Stepwise assembly of the earliest precursors of large ribosomal subunits in yeast.Nucleic Acids Res. 2017 Jun 20;45(11):6837-6847.

Wang B, Ye K.* (2017)Nop9binds the central pseudoknot region of 18S rRNA.Nucleic Acids Res. 2017 Apr 7;45(6):3559-3567. doi: 10.1093/nar/gkw1323.

Sun Q#, Zhu X#, Qi J#, An W#, Lan P, Tan D, Chen R, Wang B, Zheng S, Zhang C, Chen X, Zhang W, Chen J, Dong MQ, Ye K.*(2017)Molecular architecture of the 90S small subunit pre-ribosome.Elife.2017 Feb 28;6.

Cheng Zhang, Qi Sun, Rongchang Chen, Xining Chen, Jinzhong Lin andKeqiong Ye*(2016) Integrative structural analysis of the UTPB complex, an early assembly factor for eukaryotic small ribosomal subunits.Nucleic Acids Res.doi: 10.1093/nar/gkw562.

Liman Zhang#, Chen Wu#, Gaihong Cai, She Chen,Keqiong Ye*(2016) Stepwise and dynamic assembly of the earliest precursors of small ribosomal subunits in yeast.Genes & Dev.30:718-32.

Xing Zhu andKeqiong Ye*(2015) Cmr4 is the slicer in the RNA-targeting Cmr CRISPR complex.Nucleic Acids Res.43(2):1257-67.

Sanduo Zheng, Raffaella Villa, Jia Wang, Yingang Feng, Jinfeng Wang, Peter B. Becker andKeqiong Ye*(2014) Structural basis of X chromosome DNA recognition by the MSL2 CXC domain during Drosophila dosage compensation.Genes & Dev. 28: 2652-2662.

Jing Lu, Mengyi Sun andKeqiong Ye*(2013) Structural and functional analysis of Utp23, a yeast ribosome synthesis factor with degenerate PIN domain.RNA. 19:1815-24.

Jinzhong Lin#, Jing Lu#, Yingang Feng, Mengyi Sun andKeqiong Ye*(2013) An RNA-binding complex involved in ribosome biogenesis contains a protein with homology to tRNA CCA-adding enzyme.PLoS Biol11(10): e1001669.

Xinxing Yang, Jinqi Duan, Shuang Li, Peng Wang, Shoucai Ma,Keqiong Ye*and Xin Sheng Zhao* (2012) Kinetic and thermodynamic characterization of the reaction pathway of box H/ACA RNA-guided pseudouridine formation.Nucleic Acids Res.40:10925-36.

Jinping Liu#, Shukun Luo#, Hongchang Zhao, Ji Liao, Jing Li, Chunying Yang, Bo Xu, David F. Stern, Xingzhi Xu* andKeqiong Ye*(2012) Structural mechanism of the phosphorylation-dependent dimerization of the MDC1 forkhead-associated domain.Nucleic Acids Res. 40:3898-912.

Shuang Li, Jingqi Duan, Dandan Li, Bing Yang, Mengqiu Dong andKeqiong Ye*(2011) Reconstitution and structural analysis of the yeast box H/ACA RNA-guided pseudouridine synthase.Genes Dev25:2409-2421.

Jinzhong Lin, Shaomei Lai, Ru Jia, Anbi Xu, Liman Zhang, Jing Lu andKeqiong Ye*(2011) Structural basis of site-specific ribose methylation by box C/D RNA protein complexes.Nature469: 559-563.

Lin Huang, Ping Yin, Xing Zhu, Yi Zhang andKeqiong Ye*(2010) Crystal structure and centromere binding of the plasmid segregation protein ParB from pCXC100.Nucleic Acids Res. 39: 2954-2968.

Keqiong Ye*,Ru Jia, Jinzhong Lin, Minghua Ju, Jin Peng, Anbi Xu and Liman Zhang (2009) Structural organization of box C/D RNA-guided RNA methyltransferase.Proc Natl Acad Sci USA, 106: 13808-13813.

Jingqi Duan, Ling Li, Jing Lu, Wei Wang andKeqiong Ye*(2009) Structural mechanism of substrate RNA recruitment in H/ACA RNA-guided pseudouridine synthase.Mol Cell34:427-439.

Jinzhong Lin, Tao Zhou,Keqiong Ye*and Jinfeng Wang* (2007) Crystal structure of human mitoNEET reveals distinct groups of iron-sulfur proteins.Proc Natl Acad Sci USA104:14640-14645.

Ma, J.#,Ye, K#.and Patel, D.J. (2004) Structural mechanism of overhang-specific small interfering RNA recognition of the PAZ domain.Nature429:318-322.

Ye, K.,Malinina, L. and Patel, D.J. (2003) Recognition of small interfering RNA by a viral suppressor of RNA silencing.Nature426:874-878.

Ye, K. and Wang, J. (2001) Self-association reaction of denatured staphylococcal nuclease fragments characterized by heteronuclear NMR.J. Mol. Biol.307:309-322.

Ye, K., Jing, G. and Wang, J. (2000) Interactions between subdomains in the partially folded state of staphylococcal nuclease.Biochim. Biophys. Acta. 1479:123-134.

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Selected review publications

Wei Zhang andKeqiong Ye*(2010) Progress in structural biology of RNA silencing.Chinese Bulletin of Life Sciences22: 608-615. (review in Chinese)

Keqiong Ye*.(2007) H/ACA RNAs, proteins and complexes. Curr. Opin.Struct. Biol.17:287-292. (review)

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