计算机辅助蛋白质设计
大分子核磁共振方法研究

1-2名博士,1名硕士

071010-生物化学与分子生物学
070304-物理化学（含：化学物理）

计算机辅助蛋白设计
蛋白质核磁共振

2001-07--2006-06   美国密西根州立大学   博士
1996-09--2001-07   中国科学技术大学   学士

-- 研究生

-- 博士

   

2010-06~现在, 中科院青岛生物能源与过程研究所, 研究员
2006-06~2010-05,美国国立健康中心, 博士后

   

[1] 黄青山, 姚礼山, 郭欣. 一种平板气升环流式光合微生物培养装置. CN: CN107034135B, 2020-04-07.

[2] 姚礼山, 宋乡飞, 王业飞, 张树军, 张雨, 洪景波. 一种改良性能的纤维素内切酶Cel7B突变体. 中国: CN104560922B, 2018-04-27.

[3] 姚礼山, 何春燕, 安辽原, 舒志愚. 一种改良性能的纤维素内切酶Cel5A突变体. 中国: CN105441411A, 2016-03-30.

[4] 黄青山, 姚礼山. 外凸出螺旋槽式旋流器. 中国: CN204769199U, 2015-11-18.

[5] 黄青山, 姚礼山. 一种外凸出螺旋槽式旋流器. 中国: CN104907190A, 2015-09-16.

[6] 姚礼山, 宋乡飞, 王业飞. 一种改良性能的黄素单核苷酸结合荧光蛋白质. 中国: CN103421096A, 2013-12-04.

1. Stepan Sklenak, Lishan Yao, Robert I. Cukier and Honggao Yan, Catalytic Mechanism of Yeast Cytosine Deaminase: An ONIOM Computational Study. J. Am. Chem. Soc. 126, 14879-14889, 2004
2. Lishan Yao, Stepan Sklenak, Honggao Yan, and Robert I. Cukier, A Molecular Dynamics Exploration of Catalytic Mechanism of Yeast Cytosine Deaminase. J. Phys. Chem. B 109, 7500-7510, 2005
3. Lishan Yao, Yue Li, Yan Wu, Aizhuo Liu and Honggao Yan, Product Release Is Rate-Limiting in the Activation of the Prodrug 5-Fluorocytosine by Yeast Cytosine Deaminase. Biochemistry 44, 5940-5947, 2005
4. Lishan Yao, Honggao Yan, and Robert I. Cukier, Mechanism of Dihydroneopterin Aldolase: A Molecular Dynamics      Study of Apo Enzyme and Its Product Complex. J. Phys. Chem. B 110, 1443-1456, 2006
5. Lishan Yao, Honggao Yan, and Robert I. Cukier, A Combined ONIOM Quantum Chemical-Molecular Dynamics Study of Zinc-Uracil      Bond Breaking in Yeast Cytosine Deaminase. J. Phys. Chem. B. 110, 26320-26326, 2006
6. Aizhuo Liu, Yue Li, Lishan Yao and Honggao Yan, Simultaneous NMR assignment of backbone and side chain amides in large proteins with IS-TROSY. J. Biomolecular NMR. 36, 205-214, 2006
7. Lishan Yao, Honggao Yan, and Robert I. Cukier, A Product Release Path of Yeast Cytosine Deaminase. Biophys. J. 92, 2301-2310, 2007
8. Lishan Yao, Honggao Yan, and Robert I. Cukier, Catalytic Mechanism of Guanine Deaminase. J. Phys. Chem. B. 111, 4200-4210, 2007
9. Aizhuo Liu, Lishan Yao, Yue Li and Honggao Yan, Trosy of side-chain amides of large proteins. J. Magn. Reson. 186 319-326, 2007
10. Lishan Yao and Ad Bax, Modulating Protein Alignment in a Liquid-Crystalline Medium through Conservative Mutagenesis J. Am. Chem.Soc. 129, 11326-11327, 2007
11. Lishan Yao, Beat Voegeli, Dennis A. Torchia, and Ad Bax, Simultaneous NMR Study of Protein Structure and Dynamics Using Conservative Mutagenesis J. Phys. Chem. B. 112, 6045–6056, 2008
12. Aizhuo Liu, Zhenwei Lu, Jifeng Wang, Lishan Yao, Yue Li, and Honggao Yan, NMR Detection of Bifurcated Hydrogen Bonds in Large Proteins J. Am. Chem. Soc. 130, 2428-2429, 2008
13. Aizhuo Liu, Jifeng Wang, Zhenwei Lu, Lishan Yao, Yue Li, and Honggao Yan, Hydrogen-Bond Detection, Configuration Assignment and Rotamer Correction of Side-Chain Amides in Large Proteins by NMR Spectroscopy through Protium/Deuterium Isotope Effects CHEMBIOCHEM. 9, 17 2860-2871, 2008
14. Beat Vogeli, Lishan Yao, and Ad Bax, Protein Backbone Motions Viewed by Intraresidue and Sequential H^N-H^a Residue Dipolar Couplings J. Biomolecular NMR, 41, 17-28, 2008.
15. Justin Lorieau, Lishan Yao and Ad Bax, Liquid Crystalline Phase of G-tetrad DNA for NMR Study of Detergent-Solubilized Proteins J. Am. Chem. Soc., 130, 7536-7537 2008.
16. Lishan Yao, Jinfa Ying, Beat Vogeli and Ad Bax, NMR Determination of Amide N−H Equilibrium Bond Length from Concerted Dipolar Coupling Measurements J. Am. Chem. Soc., 130, 16518–16520 2008.
17. Beat Vogeli and Lishan Yao, Correlated Dynamics between Protein HN and HC Bonds Observed by NMR Cross Relaxation J. Am. Chem. Soc., 131, 3668-3678 2009.
18. Lishan Yao, Jinfa Ying and Ad Bax, Improved accuracy of ¹⁵N-¹H scalar and residual dipolar couplings from gradient-enhanced IPAP-HSQC experiments on protonated proteins J. Biomolecular NMR, 43, 161-170, 2009
19. Alexander Grishaev, Lishan Yao, Jinfa Ying, Arthur Pardi and Ad Bax, Chemical shift anisotropy of imino ¹⁵N nuclei in Watson-Crick base pairs from magic angle spinning liquid crystal NMR and nuclear spin relaxation J. Am. Chem. Soc. 131, 9490-9491 2009
20. Lishan Yao, Alexander Grishaev, Gabriel Cornilescu, and Ad Bax, Site-specific backbone amide ¹⁵N chemical shift      anisotropy tensors from liquid crystal and cross-correlated relaxation measurements J. Am. Chem. Soc. 132,      4295-4309 (2010).
21. Lishan Yao, Alexander Grishaev, Gabriel  Cornilescu, and Ad Bax, The impact of hydrogen bonding on amide ¹H chemical shift anisotropy studied by cross-correlated relaxation and liquid crystal NMR spectroscopy. J. Am. Chem. Soc. 132,      10866-10875 (2010).
22. Tong Li, Qingqing Jing and Lishan Yao*, Dynamics of the GB3 Loop Regions from MD Simulation: How Much of It Is      Real? J. Phys. Chem. B. 115, 3488-3495 2011
23. Shihai Yan, Tong Li and Lishan Yao*, Mutational Effects on the Catalytic  Mechanism of Cellobiohydrolase I from Trichoderma reesei J. Phys. Chem. B 115 (17), 4982–4989 2011.
24. Tong Li & Shihai Yan & Lishan Yao*, The impact of Trichoderma reesei Cel7A carbohydrate binding domain mutations      on its binding to a cellulose surface: a molecular dynamics free energy study J. Mol. Mod. 18,1355-1364,  2012
25. Jingbo Hong, Qingqing Jing and Lishan Yao*, The protein amide ¹H^N chemical shift temperature coefficient reflects thermal expansion of the N-H...O=C hydrogen bond Journal of Biomolecular NMR 55:71–78, 2013
26. Yu Zhang, Shihai Yan and Lishan Yao*,  Mechanism of  the Humicola insolens Cel7B E197S mutant catalyzed flavonoid glycosides synthesis: a QM/MM metadynamics simulation study Theor Chem Acc 132:1367, 2013
27. Xiangfei Song, Yefei Wang, Zhiyu Shu, Jingbo Hong, Tong Li, and Lishan Yao*, Engineering a more thermostable blue light photo receptor Bacillus Subtilis YtvA LOV domain by a computer aided rational design method Plos Comp. Biol. 9(7): e1003129. doi:10.1371/journal.pcbi.1003129, 2013
28. Yu Zhang, Shihai Yan, and Lishan Yao*, A Mechanistic Study of Trichoderma reesei Cel7B Catalyzed Glycosidic Bond Cleavage J. Phys. Chem. B,117 (29), 8714–8722, 2013
29. Liaoyuan An, Yefei Wang, Ning Zhang, Shihai Yan, Ad Bax, and Lishan Yao*, Protein Apparent Dielectric Constant and Its Temperature Dependence from Remote Chemical Shift Effects J. Am. Chem. Soc. 2014, 136, 12816−12819
30. Shujun Zhang, Yefei Wang, Xiangfei Song, Jingbo Hong, Yu Zhang, and Lishan Yao*, Improving Trichoderma reesei Cel7B Thermostability by Targeting the Weak Spots J. Chem. Inf. Model. 2014, 54, 2826–2833
31. Yulong Duan, Shihai Yan, Xinhong Zhou, Wei Xu, Hongxia Xu, Zhihong Liu, Lixue Zhang, Chuanjian Zhang, Guanglei Cui*, and Lishao Yao*, The morphology transformation from helical nanofiber to helical nanotube in a diarylethene self-assembly system Chem. Comm., 2014, 50, 8335-8338
32. Zhiyu Shu, Yefei Wang, Liaoyuan An, and Lishan Yao*, Slowdown of Endoglucanase Trichoderma reesei Cel5A catalyzed Cellulose Hydrolysis Is Related to Its Initial Activity Biochemistry 2014, 53, 7650-7658

33. Guy Kamnesky, Orel Hirschhorn,      Hadassa Shaked, Jingfei Chen, Lishan Yao, and Jordan H. Chill*, Molecular      determinants of tetramerization in the KcsA cytoplasmic domain Protein Sci. 2014, 23, 1403-1416
34. Chunyan      He, Jingfei Chen, Liaoyuan An, Yefei, Wang, Zhiyu Shu, Lishan Yao*, Carboxyl-peptide plane stacking is important for stabilization of buried      E305 of Trichoderma reesei Cel5A J. Chem. Inf. Model. 2015, 55, 104−113
35. Yefei      Wang, Jia Wang, Lishan Yao*, Computational study of peptide plane stacking with polar and ionizable amino acid side chains J. Phys. Chem. A, 2015, 119, 3471–3478
36. Xiangfei      Song, Yefei Wang, Shujun Zhang, Shihai Yan, Tong Li, Lishan Yao*, Characterization of the Dielectric Constant in the Trichoderma reesei Cel7B Active Site J. Chem. Inf. Model. 2015, 55, 1369−1376
37. Yefei  Wang, Xiangfei Song, Shujun Zhang, Jingwen Li, Zhiyu Shu, Chunyan He, Qingshan Huang and Lishan Yao*, Improving the activity of Trichoderma reesei cel7B through stabilizing the transition state Bioeng. and Biotech. 2015, DOI: 10.1002/bit.25887
38. Yefei Wang, Shujun Zhang, Xiangfei Song, and Lishan Yao*, Cellulose Chain Binding Free Energy Drives the Processive Move of Cellulases on the Cellulose Surface, Bioeng. and Biotech. 2016,113, 1873-1880
39. Xiangfei Song, Shujun Zhang, Yefei Wang, Jingwen Li, Chunyan He, Lishan Yao*, A  kinetic Study of Trichoderma reesei Cel7B Catalyzed Cellulose Hydrolysis, Enzyme and Microbial Technol. 2016, 87, 9-16
40. Jingwen Li, Yefei Wang, Jingfei Chen, Zhijun Liu, Ad Bax and Lishan Yao*, Observation of a-Helical Hydrogen Bond Cooperativity in an Intact Protein, J. Am. Chem. Soc. 2016, 138, 1824-1827

   

（ 1 ） 结合分子模拟与核磁共振研究纤维素酶催化水解过程, 主持, 部委级, 2011-01--2013-12
（ 2 ） 生物大分子核磁共振研究, 主持, 省级, 2012-01--2014-12
（ 3 ） 发展新型研究蛋白质结构和动力学的核磁共振残留偶极耦合方法, 主持, 国家级, 2012-01--2015-12
（ 4 ） 发展核磁共振与计算模拟结合的新方法解析小肽解折叠构象, 主持, 国家级, 2013-01--2016-12

已指导学生

张雨  02  19294  

洪景波  02  63220  

舒志愚  01  19183  

何春艳  02  63228  

胡德平  02  63222  

张树军  01  19183  

现指导学生

张宁  01  19183  

李敬文  01  19183  

彭佳伟  02  63220  

羊涛  02  63220  

王佳  01  19183  

吕天航  02  19183