Principle Investigator Jin Yu

Complex Systems

Office Location
Room A210

PhD, Physics, University of Illinois at Urbana- Champaign (UIUC), 2007

BS and MS, Physics, Tsinghua University, 1998 and 2001

Professional Employment

Dr Jin Yu obtained her degrees in physics. During her graduate study, she worked with Prof Klaus Schulten (UIUC) in theoretical and computational biophysics, in collaboration with Prof Taekjip Ha's lab in single molecule physics. As a postdoctoral fellow, she worked with Prof George Oster (UC Berkeley) in mathematical and physical modeling as well as with Prof Carlos Bustamante's lab in studying bimolecular machinery. Dr Yu led her independent research on computational biophysics in CSRC since 2012 (Google Citation). 

Jin Yu- CV2018-full.pdf

Research Interests

To study how protein and DNA/RNA machinery work in coordination and control, as well as how they achieve biological functions with sufficiently high efficiency and fidelity among noises and fluctuations. Particular interest is on genetic and epigenetic regulation, and on how essential bimolecular entities evolve and impact on evolution (view lab research page). Positions open to graduate students and postdoctoral researchers!


UC Berkeley Chancellor's Postdoctoral Fellowship 2007

Representative Publications
1.  Deciphering intrinsic inter-subunit couplings that lead to sequential hydrolysis of F1-ATPase ring. Liqiang Dai, Holger Flechsig, and Jin Yu*. Biophysical Journal 113(7) 144-1453, 2017.
2.  T7 RNA polymerase translocation is facilitated by a helix opening on the fingers domain that may also prevent backtracking. Lin-Tai Da*+, Chao E+, Yao Shuai, Shaogui Wu, Xiao-Dong Su, Jin Yu*. Nucleic Acids Research 45(13) 7909-7921, 2017
3.  A Jump-from-Cavity Pyrophosphate Ion Release Assisted by a Key Lysine Residue in T7 RNA Polymerase Transcription Elongation. Lin-Tai Da, Chao E, Baogen Duan, Chuanbiao Zhang, Xin Zhou, Jin Yu*. PLoS Computational Biology 11(11) e1004624, 2015
4.  Constructing kinetic models to elucidate structural dynamics of a complete RNA polymerase II elongation cycle. Jin Yu*, Lin-Tai Da, Xuhui Huang*. Physical Biology, 102, 016004, 2015
5.  A critical residue selectively recruits nucleotides for T7 RNA polymerase transcription fidelity control. Baogen Duan, Shaogui Wu, Lin-Tai Da, Jin Yu*. Biophysical Journal, 107, 2130-2140, 2014
6.  Mechanochemistry of a viral DNA packaging motor. Jin Yu, Jeff Moffitt, Craig Hetherington, Carlos Bustamante, and George Oster*. Journal of Molecular Biology, 400:186-203, 2010
7.  Mechanism of gating and ion conductivity of a possible tetrameric pore in Aquaporin-1. Jin Yu, Andrea J. Yool, Klaus Schulten, and Emad Tajkhorshid*. Structure, 14:1411-1423, 2006
8.  Structure-based model of the stepping motor of PcrA helicase. Jin Yu, Taekjip Ha, and Klaus Schulten*. Biophysical Journal, 91:2097-2114, 2006
9.  Conformational model of the Holliday junction transition deduced from molecular dynamics simulations. Jin Yu, Taekjip Ha, and Klaus Schulten*. Nucleic Acids Research, 32:6683-6695, 2004.
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