This is Shikai's publications by categories in reversed chronological order. * denotes equal contribution


  1. JBP
    Exploring the folding energy landscapes of heme proteins using a hybrid AWSEM-heme model
    Xun Chen, Wei Lu, Min-Yeh Tsai,  Shikai Jin, and Peter G Wolynes
    Journal of Biological Physics 2022
  2. Abstract
    Mechanism of translocation by bacteriophage T7 helicase gp4 using AWSEM-Suite
    Shikai Jin, Carlos Bueno, Wei Lu, Yang Gao, and Peter G Wolynes
    Biophysical Journal 2022
  3. PNAS
    Computationally exploring the mechanism of bacteriophage T7 gp4 helicase translocating along ssDNA
    Shikai Jin, Carlos Bueno, Wei Lu, Qian Wang, Mingchen Chen, Xun Chen, Peter G Wolynes, and Yang Gao
    Proceedings of the National Academy of Sciences 2022
  4. Abstract
    Deep learning-based prediction of electron density maps of proteins
    Tom Pan,  Shikai Jin, Mitchell D Miller, and George N Phillips
    Biophysical Journal 2022
  5. Nat Comm
    Unleashing the potential of noncanonical amino acid biosynthesis to create cells with precision tyrosine sulfation
    Yuda Chen,  Shikai Jin, Mengxi Zhang, Yu Hu, Kuan-Lin Wu, Anna Chung, Shichao Wang, Zeru Tian, Yixian Wang, Peter G Wolynes, and others
    Nature Communications 2022


  1. PLoS Comp Bio
    OpenAWSEM with Open3SPN2: A fast, flexible, and accessible framework for large-scale coarse-grained biomolecular simulations
    Wei Lu, Carlos Bueno, Nicholas P Schafer, Joshua Moller,  Shikai Jin, Xun Chen, Mingchen Chen, Xinyu Gu, Aram Davtyan, Juan J Pablo, and others
    PLoS computational biology 2021
  2. Abstract
    Exploring the translocation mechanism of bacteriophage T7 helicase
    Shikai Jin, Carlos Bueno, Wei Lu, Yang Gao, and Peter G Wolynes
    Biophysical Journal 2021


  1. NAR
    AWSEM-Suite: a protein structure prediction server based on template-guided, coevolutionary-enhanced optimized folding landscapes
    Shikai Jin, Vinicius G Contessoto, Mingchen Chen, Nicholas P Schafer, Wei Lu, Xun Chen, Carlos Bueno, Arya Hajitaheri, Brian J Sirovetz, Aram Davtyan, and others
    Nucleic Acids Research 2020
  2. JCTC
    Protein structure prediction in CASP13 using AWSEM-Suite
    Shikai Jin*, Mingchen Chen*, Xun Chen*, Carlos Bueno, Wei Lu, Nicholas P Schafer, Xingcheng Lin, José N Onuchic, and Peter G Wolynes
    Journal of Chemical Theory and Computation 2020
  3. JPCB
    Protein structure refinement guided by atomic packing frustration analysis
    Mingchen Chen*, Xun Chen*,  Shikai Jin, Wei Lu, Xingcheng Lin, and Peter G Wolynes
    The Journal of Physical Chemistry B 2020
  4. IUCrJ
    Molecular-replacement phasing using predicted protein structures from AWSEM-Suite
    Shikai Jin, Mitchell D Miller, Mingchen Chen, Nicholas P Schafer, Xingcheng Lin, Xun Chen, George N Phillips, and Peter G Wolynes
    IUCrJ 2020


  1. PNAS
    Forging tools for refining predicted protein structures
    Xingcheng Lin, Nicholas P Schafer, Wei Lu,  Shikai Jin, Xun Chen, Mingchen Chen, José N Onuchic, and Peter G Wolynes
    Proceedings of the National Academy of Sciences 2019


  1. Mol Pharmacol
    Identification of an oleanane-type triterpene hedragonic acid as a novel farnesoid X receptor ligand with liver protective effects and anti-inflammatory activity
    Yi Lu, Weili Zheng, Shengchen Lin, Fusheng Guo, Yanlin Zhu, Yijuan Wei, Xi Liu,  Shikai Jin, Lihua Jin, and Yong Li
    Molecular pharmacology 2018
  2. Traffic
    Structural insights into the nuclear import of the histone acetyltransferase males-absent-on-the-first by importin α1
    Weili Zheng, Rui Wang, Xi Liu, Siyu Tian, Benqiang Yao, Ang Chen,  Shikai Jin, and Yong Li
    Traffic 2018


  1. Oncotarget
    Factors and pathways involved in capacitation: how are they regulated?
    Shikai Jin, and Wanxi Yang
    Oncotarget 2017
  2. ChemBioChem
    A novel class of natural FXR modulators with a unique mode of selective co-regulator assembly
    Weili Zheng, Yi Lu, Shengchen Lin, Rui Wang, Lin Qiu, Yanlin Zhu, Benqiang Yao, Fusheng Guo,  Shikai Jin, Lihua Jin, and others
    ChemBioChem 2017