赵一雷

姓名: 赵一雷

职称: 教授

E-Mail: yileizhao@sjtu.edu.cn

个人主页:

联系电话: 021-34207190

  • 个人简历:

    个人简介

    计算化学与分子生物信息学课题组组长 主要从事结构生物信息学和计算化学生物学领域的研究,例如DNA硫修饰的分子结构基础与其抗氧化机制、加氧酶和水解酶的催化机制及其在环保和能源科学应用、ROS相关的氧化还原类型蛋白质翻译后修饰及医学应用。曾在吴云东、黄春辉、钱逸泰、Houk等四位院士直接指导下从事材料化学和理论化学研究,研究成果包括:提出生物高分子重复单元结构(Foldamer)在高级结构中的耦合作用、R手性硫修饰对DNA双螺旋性结构的不稳定效应、生物ROS自由基的形成及对蛋白质的修饰作用。约50SCI论文发表在Account Chemical ResearchAngew ChemJACS8篇)等分子机制研究的旗舰杂志上,总影响因子大约190 被引用超过600次,H因子15

    教育经历

    2002.10-2005.09  美国加州大学洛杉矶分校    博士后访问学者

    1999.01-2002.04  香港科技大学              博士

    1994.09-1997.06  北京大学                  硕士

    1989.09-1994.06  中国科技大学              学士

    工作经历

    2014.03-       上海交通大学生命科学技术学院,院长助理

    2011.12-       上海交通大学微生物代谢国家重点实验室,研究员

    2010.10-       上海交通大学生物信息学与生物统计学系,副主任

    2009.05-       上海交通大学生命科学技术学院,教授 博士生导师

    2005.10-2009.04 美国国家标准技术研究所(NIST),外国研究员

    2002.10-2005.09 美国加州大学洛杉矶分校(UCLA),访问学者

    1997.06-1998.12 中国化工信息中心,工程师

    荣誉奖励

    2014         九三学社上海交通大学委员会委员、闵行区侨联委员

    2013         上海市生物信息学会第三届理事

    2012         教育部新世纪优秀人才

    2010         上海市浦江人才计划

    2010         《生物医学工程与临床》编委

    2009         上海市“东方学者”特聘教授

    2005-07       美国PMUSA-INEST Fellowship

    2005           UCLA优秀博士后嘉奖(美国)

  • 1. 核酸和蛋白质化学修饰的结构和功能

    2. 生化反应动力学分子机理的解析和验证

    3. 结构生物信息学与计算生物学

  • 1.    Cheng SL, Shi T, Wang XL, Liang J, Wu H, Xie L, Li YX, Zhao YL*. Features of S-nitrosylation based on statistical analysis and molecular

    dynamics simulation: Cysteine acidity, surrounding basicity, steric hindrance and local flexibility. Mol BioSyst, 2014, DOI: 10.1039/C4MB00322E (online ahead).

    2.    Shi T, Luo Y, Wang XL, Lu S, Zhao YL*, Jian Zhang*. Theoretical studies on the mechanism, enantioselectivity, and axial ligand effect of a Ru(salen)-catalyzed asymmetric cyclopropanation reaction. Organometallics, 2014, dx.doi.org/10.1021/om400956z (online ahead)

    3.    Qi Y, Zhu J, Sun Y, Du Y, Chu J, Shi T, Zhao YL*, Wang XL*. Theoretical studies of the binding-affinity and reactivity between laccase and phenolic substrates. Chem J Chinese Univ, 2014, 35(4):776-83.

    4.    Zhang G, Zhang W, Zhang Q, Shi T, Ma L, Zhu Y, Li S, Zhang H, Zhao YL, Shi R, Zhang CS*. Mechanistic insights into polycyclic formation by reductive cyclization in Ikarugamycin biosynthesis. Angew Chem Int Ed, 2014, 53(19): 4840-4

    5.    Wu G, Chen D, Tang H, Ren Y, Chen Q, Lv Y, Zhang Z, ZhaoYL*, Yao Y, Xu P*. Structural insights into the specific recognition of N-heterocycle biodenitrogenation-derived substrates by microbial amide hydrolases. Mol Microbio, 2014, 91(5), 1009-21.

    6.    Cheng S, Lian B, Liang J, Shi T, Xie L, Zhao YL*. Site selectivity for protein tyrosine nitration: insights from features of structure and topological network. Mol Biosyst, 2013, 9: 2860-8.

    7.    Huang Y, Chen Z, Chen Y, Zhang H, Zhang Y, Zhao YL, Yang Z*, Zhang LH*. Effects of conformational alteration induced by D-/L-isonucleoside incorporation in siRNA on their stability in serum and silencing activity. Bioconjugate Chem, 2013, 24:951-9.

    8.    Lei Y, Zhang F, Chen QH, Lin SJ, Zhao YL, Li ZY*. The role of aromatic L-amino acid decarboxylase in bacillamide C biosynthesis by Bacillus atrophaeus C89. Sci Rep, 2013, 3:1753.

    9.    Chen D, Tang H, Lv Y, Zhang Z, Shen K, Lin K, Zhao YL, Wu G*, Xu P*. Structural and computational studies of the maleate isomerase from Pseudomonas putida S16 reveal a breathing motion wrapping the substrate inside. Mol Microbio, 2014, 91(5), 1009-21.

    10.   Zhang Y, Liang J, Lian P, Han Y, Chen Y, Bai L, Wang Z, Liang J, Deng Z, Zhao YL*. Theoretical study on steric effect of DNA phsphorothioation: B-helical destabilization in Rp-phosphorothioated DNA. J Phys Chem B, 2012, 116:10639-48

    11.   Liang J, Cheng SL, Hou J, Xu ZH, Zhao YL*. Car-Parinello molecular dynamics simulations of thionitroxide and S-nitrosothiol in the gas phase, methanol, and water - A theoretical study of S-nitrosylation. Sci China Chem, 2012, 55(10): 2081-8.

    12.   Xie X, Liang J, Pu T, Xu F, Yao F, Yang Y, Zhao YL, You D, Zhou X, Deng Z*, Wang Z*. Phosphorothioate DNA as an antioxidant in bacteria.  Nuc Acids Res, 2012, 40(18):9115-24.

    13.   Xu M, Liu X, Zhao YL, Liu D, Xu Z, Lang X, Ao P, Lin W, Yang S, Zhang Z*, Xu J*. Identification and characterization of an anti-fibrotic benzopyran compound isolated from mangrove-derived Streptomyces xiamenensis. Mar Drugs, 2012, 10, 639-54.

    14.   Li Y, Du X, Lu Z, Wu D, Zhao YL, Ren B, Huang J, Huang X, Xu Y, Xu Y*. Regulatory feedback loop of two phz gene clusters through 5’-untranslated regions in Pseudomonas sp. M18. Plos One, 2011, 6(4):e19413.

    15.   Li X, Xu M, Zhao YL, Xu J. A novel benzo[f][1,7]-naphthyridine produced by Streptomyces Albogriseolus from mangrove sediments. Molecules, 2010, 15:9298-307.

    16.   Schulz P, Zangmeister C*, Zhao YL, Frail P, Saudari S, Gonzalez C, Kagan C, Wuttig M, van Zee R. Comparison of the energy-level alignment of thiolate- and carbodithiolate-bound self-assembled monolayers on gold. J Phys Chem C, 2010, 114:20843–51.

    17.   Zhao YL*, Meot-Ner M, Gonzalez C. Ionic hydrogen-bond networks and ion solvation. 1. an efficient Monte Carlo/quantum mechanical method for structural search and energy computations: ammonium/water. J Phys Chem A, 2009, 113:2967–74.

    18.   Zhao YL*, Flora J, Thweatt W, Garrison S, Gonzalez C, Houk K, Marquez M. Phosphine polymerization by nitric oxide: Experimental characterization and theoretical predictions of mechanism. Inorg Chem, 2009, 48:1223-31.

    19.   Bartalis J, Zhao YL, Flora J, Paine III J, Wooten J*. Carbon-centered radicals in cigarette smoke: acyl and alkylaminocarbonyl radicals. Anal Chem, 2009, 81:631–41.

    20. Penoni A, Palmisano G, Zhao YL, Houk K, Volkman J, Nicholas K. On the mechanism of nitrosoarene-alkyne cycloaddition. JACS, 2009, 131:653-61.

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