Weikai Lab

Publications

2024

  • J. Ye, H. Chen, K. Wang, Y. Wang, A. Ammerman, S. Awasthi, J. Xu , B. Liu, W. Li .Structural insights into vesicular monoamine storage and pharmacological interactions. Nature. (2024).
  • The tetraspanin CD53 promotes CXCR4 signaling and bone marrow homing in B cells”  The Journal of Immunology, Cutting Edge section.

2023

  • Precursor Reagent Hydrophobicity Affects Membrane Protein Footprinting
  • Q. Cao, Z. Hao, C. Li, X. Chen, M. Gao, N. Jiang, H. Liu, Y. Shen, H. Yang, S. Zhang, A. Yang, W. Li, JK. Tie, G. Shen. Molecular basis of inherited protein C deficiency results from genetic variations in the signal peptide and propeptide regions. J Thromb Haemost . S1538-7836(23)00506-8. (2023).
  • W. Li. Distinct enzymatic strategies for de novo generation of disulfide bonds in membranes. Critical Reviews in Biochemistry and Molecular Biology. 58(1):36-49. (2023).  Article
  • H. C. Yang, W. Li, J. Sun, M. L. Gross. Advances in Mass Spectrometry on Membrane Proteins. Membranes. 13(5):457. (2023).
  • S. Li, J. Sun, S. Liu, F. Zhou, M. L. Gross, W. Li. Missense VKOR mutants exhibit severe warfarin resistance but lack VKCFD via shifting to an aberrantly reduced state. Blood Advance. 7(10):2271-2282. (2023).
  • Z. J. Greenberg, L. C. Paracatu, D. A. Monlish, Q. Dong, M. Rettig, N. Roundy, R. Gaballa, W. Li, W. Yang, C. J. Luke, L. G. Schuettpelz. The tetraspanin CD53 protects stressed hematopoietic stem cells via promotion of DREAM complex-mediated quiescence. Blood. 141(10):1180-1193. (2023).
  • B. Higgins, J. A. Adams, M. H. Ward, Z. J. Greenberg, M. Milewska, J. Sun, Y. Zhang, L. C. Paracatu, Q, Dong, S. Ballentine, W. Li, I. Wandzik, L. G. Schuettpelz, B. J. DeBosch. The tetraspanin transmembrane protein CD53 mediates dyslipidemia and integrates inflammatory and metabolic signaling in hepatocytes. Journal of Biological Chemistry. 299(2):102835. (2023).

2022

  • S. Liu and W. Li . Protein Fusion Strategies for Membrane Protein Stabilization and Crystal Structure Determination. Crystals. 10.3390/cryst12081041. (2022).
  • S. Liu, G. Shen, and W. Li . Structural and cellular basis of vitamin K antagonism. J. Thromb. Haemost. 10.1111/jth.15800. (2022).
  • J. Sun, W. Li and M. L. Gross. Advances in Mass Spectrometry-Based Footprinting of Membrane Proteins. Journal of Proteomics. e2100222. (2022).
  • G. Shen, M. Gao, C. Cao, W. Li.  The Molecular Basis of FIX Deficiency in Hemophilia B. Int. J. Mol. Sci. 23(5), 2762. (2022).
  • G. Shen, C. Li, Q. Cao, A. K. Megta, S. Li, M. Gao, H. Liu, Y. Shen, Y. Chen, H. Yu, S. Li, W. Li. Structural features determining the vitamin K epoxide reduction activity in the VKOR family of membrane oxidoreductases. FEBS Journal. 289(15):4564-4579. (2022).
  • S. Liu, S. Li, A. M. Krezel, W. Li. Stabilization and structure determination of integral membrane proteins by termini restraining. Nature Protocols. 17(2):540-565. (2022).

2021

  • J. Sun, X. Liu, S. Li, P. He, W. Li* and M. L. Gross*. Nanoparticles and Photochemistry for Native-like Transmembrane Protein Footprinting. Nature Communications 12(1):7270 (2021).
  • C. Guo, M. Cheng, W. Li and M. L. Gross. Diethylpyrocarbonate Footprints a Membrane Protein in Micelles. Journal of the American Society for Mass Spectrometry 32, 11, 2636–2643. (2021).
  • J. Sun, S. Li, W. Li and M. L. Gross. Carbocation Footprinting of Soluble and Transmembrane Proteins. Anal. Chem. 93, 39, 13101–13105. (2021).
  • F. Zhou, Y. Yang, S. Chemuru, W. Cui, S. Liu, M. L. Gross, and W. Li. Footprinting Mass Spectrometry of Membrane Proteins: Ferroportin Reconstituted in Saposin A Picodiscs. Anal. Chem. 93(33):11370-11378 (2021).
  • W. Li. Targeting multiple enzymes in vitamin K metabolism for anticoagulation. J. Thromb. Haemost. 19(3):633-636. (2021).
  • M. Cheng, C. Guo, W. Li, M. L. Gross. Free‐Radical Membrane Protein Footprinting by Photolysis of Perfluoroisopropyl Iodide Partitioned to Detergent Micelle by Sonication. Angewandte Chemie. 60(16), 8867-8873. (2021). Hot Article.
  • G. Shen, W. Cui, Q. Cao, M. Gao, H. Liu, G. Su, M. L. Gross, W. Li. The catalytic mechanism of vitamin K epoxide reduction in a cellular environment. J. Biol. Chem. 296:100145 (2021). Link
  • S. Liu, S. Li, G. Shen, N. Sukumar, A. M. Krezel, W. Li, Structural basis of antagonizing the vitamin K catalytic cycle for anticoagulation. Science 371(6524):eabc5667. (2021).

 

2020

  • S. Liu, S. Li, Y. Yang, W. Li, Termini restraining of small membrane proteins enables structure determination at near-atomic resolution. Science Advances. 6(51):eabe3717. (2020).
  • Y. Yang, X. R. Liu, Z. J. Greenberg, F. Zhou, P. He, L. Fan, S. Liu, G. Shen, T. Egawa, M. L. Gross, L. G. Schuettpelz, W. Li, Open conformation of tetraspanins shapes interaction partner networks on cell membranes. EMBO J. 39, e105246 (2020).
  • W. Li, “The Long Journey to Understanding the Structural Mechanism of Serine Recombinases” in Series in Structural Biology: Structural Insights into Gene Expression and Protein Synthesis. vol. 12, pp. 229-234 (2020),.
  • S. Li, Y. Yang, W. Li, Human ferroportin mediates proton-coupled active transport of iron. Blood. Adv. 4, 4758-4768 (2020).
  • W. Gao, Y. Xu, H. Liu, M. Gao, Q. Cao, Y. Wang, L. Cui, R. Huang, Y. Shen, S. Li, H. Yang, Y. Chen, C. Li, H. Yu, W. Li, G. Shen, Characterization of missense mutations in the signal peptide and propeptide of FIX in hemophilia B by a cell-based assay. Blood Adv. 4, 3659-3667 (2020).
  • Z. J. Greenberg, D. A. Monlish, R. L. Bartnett, Y. Yang, G. Shen, W. Li, J. J. Bednarski, L. G. Schuettpelz, The Tetraspanin CD53 Regulates Early B Cell Development by Promoting IL-7R Signaling. J. Immunol. 204, 58-67 (2020).
  • S. Li, S. Liu, X. R. Liu, M. M. Zhang, W. Li, Competitive tight-binding inhibition of VKORC1 underlies warfarin dosage variation and antidotal efficacy. Blood Adv. 4, 2202-2212 (2020).
  • W. Li, R. E. Bishop, F. Mancia, Integral Membrane Enzymes (2020). J. Mol. Biol. 432, 4943-4945 (2020).
  • S. Li, S. Liu, Y. Yang, W. Li, Characterization of Warfarin Inhibition Kinetics Requires Stabilization of Intramembrane Vitamin K Epoxide Reductases. J. Mol. Biol. 432, 5197-5208 (2020).

 

2017-2019

  • Z. Yang, H. Yan, W. Dai, J. Jing, Y. Yang, S. Mahajan, Y. Zhou, W. Li, C. Macaubas, E. D. Mellins, C. C. Shih, J. A. J. Fitzpatrick, R. Faccio, Tmem178 negatively regulates store-operated calcium entry in myeloid cells via association with STIM1. J. Autoimmun. 101, 94-108 (2019).
  • G. Shen, S. Li, W. Cui, S. Liu, Y. Yang, M. Gross, W. Li, Membrane Protein Structure in Live Cells: Methodology for Studying Drug Interaction by Mass Spectrometry-Based Footprinting. Biochemistry. 57, 286-294 (2018). Special issue: Future of biochemistry.
  • N. Sukumar, S. Liu, W. Li, F. S. Mathews, B. Mitra, P. Kandavelu, Structure of the monotopic membrane protein (S)-mandelate dehydrogenase at 2.2A resolution. Biochimie. 154, 45-54 (2018).
  • G. Shen, S. Li, W. Cui, S. Liu, Q. Liu, Y. Yang, M. Gross, W. Li, Stabilization of warfarin-binding pocket of VKORC1 and VKORL1 by a peripheral region determines their different sensitivity to warfarin inhibition. J. Thromb. Haemost. 16, 1164-1175 (2018). Cover story.
  • S. Li, G. Shen, W. Li, Intramembrane Thiol Oxidoreductases: Evolutionary Convergence and Structural Controversy. Biochemistry. 57, 258-266 (2018). Special issue: Future of biochemistry.
  • Y. Yang, N. Ke, S. Liu, W. Li, Methods for Structural and Functional Analyses of Intramembrane Prenyltransferases in the UbiA Superfamily. Methods Enzymol. 584, 309-347 (2017).
  • G. Shen, W. Cui, H. Zhang, F. Zhou, W. Huang, Q. Liu, Y. Yang, S. Li, G. R. Bowman, J. E. Sadler, M. L. Gross, W. Li, Warfarin traps human vitamin K epoxide reductase in an intermediate state during electron transfer. Nat. Struct. Mol. Biol. 24, 69-76 (2017). Featured in News and Views, Nature Structural & Molecular Biology, 24, 5–6.

 

2011-2016

  • Li, W. (2016) Bringing bioactive compounds into membranes: The UbiA superfamily of intramembrane aromatic prenyltransferases. Trends in Biochemical Sciences, 41(4):356-370.
  • W. Cheng, W. Li, Structural insights into ubiquinone biosynthesis in membranes. Science. 343, 878-881 (2014). Featured in NECAT newsletter.
  • S. Liu, W. Cheng, R. Fowle Grider, G. Shen, W. Li, Structures of an intramembrane vitamin K epoxide reductase homolog reveal control mechanisms for electron transfer. Nat. Commun. 5, 3110-3110 (2014).
  • E. Park, J. F. Menetret, J. C. Gumbart, S. J. Ludtke, W. Li, A. Whynot, T. A. Rapoport, C. W. Akey, Structure of the SecY channel during initiation of protein translocation. Nature. 506, 102-106 (2014).
  • W. Li, F. Li, Cross-crystal averaging with search models to improve molecular replacement phases. Structure. 19, 155-161 (2011).

 

2006-2010

  • W. Li‡, S. Schulman, R. J. Dutton, D. Boyd, J. Beckwith, T. A. Rapoport‡, Structure of a bacterial homologue of vitamin K epoxide reductase. Nature 463, 507-512 (2010). Featured in Abstractions, Nature, 463(7280):400. ‡Co-corresponding author.
  • S. Schulman, B. Wang, W. Li, T. a. Rapoport, Vitamin K epoxide reductase prefers ER membrane-anchored thioredoxin-like redox partners. Proc Natl Acad Sci U S A 107, 15027-15032 (2010).
  • K. Wu, W. Li, G. Peng, F. Li, Crystal structure of NL63 respiratory coronavirus receptor-binding domain complexed with its human receptor. Proc Natl Acad Sci U S A 106, 19970-19974 (2009).
  • J. Ye, S. H. Cho, J. Fuselier, W. Li, J. Beckwith, T. A. Rapoport, Crystal structure of an unusual thioredoxin protein with a zinc finger domain. J Biol Chem 282, 34945-34951 (2007).
  • W. Li, S. Schulman, D. Boyd, K. Erlandson, J. Beckwith, T. A. Rapoport, The Plug Domain of the SecY Protein Stabilizes the Closed State of the Translocation Channel and Maintains a Membrane Seal. Molecular Cell 26, 511-521 (2007). Cover story. Featured in Preview, Molecular Cell, 26(4): 459.
  • J. Zimmer, W. Li, T. A. Rapoport, A novel dimer interface and conformational changes revealed by an X-ray structure of B. subtilis SecA. J Mol Biol 364, 259-265 (2006).
  • S. Kamtekar, R. S. Ho, M. J. Cocco, W. Li, S. V. C .T. Wenwieser, M. R. Boocock, N. D. F. Grindley, T. A. Steitz. Implications of structures of synaptic tetramers of gamma delta resolvase for the mechanism of recombination. Proc Natl Acad Sci U S A . (2006).

Before 2006

  • W. Li, S. Kamtekar, Y. Xiong, G. J. Sarkis, N. D. Grindley, T. A. Steitz, Structure of a synaptic gammadelta resolvase tetramer covalently linked to two cleaved DNAs. Science 309, 1210-1215 (2005).
  • C. K. Lau, S. C. Lo, W. Li, D. R. Churchich, F. Kwok, J. E. Churchich, Partially folded conformations of inositol monophosphatase endowed with catalytic activity. J. Protein Chem. 17, 789-797 (1998).
  • W. Li, J. E. Churchich, Activation of partially folded mitochondrial malate dehydrogenase by thioredoxin. Eur J Biochem 246, 127-132 (1997).