The QTY Code

 

  1. Shuguang Zhang, Fei Tao, Rui Qing, Hongzhi Tang, Michael Skuhersky, Karolina Corin, Lotta Tegler, Asmamaw Wassie, Brook Wassie, Yongwon Kwon, Bernahrd Suter, Clemens Entzian, Thomas Schubert, Ge Yanf, Jõrg Labahn, Jan Kubicek, and Barbara Maertens. (2018) QTY code enables design of detergent-free chemokine receptors that retain ligand-binding activities. Proceedings of the National Academy of Sciences USA 115. doi: 10.1073/pnas.1811031115. [publisher link] [local pdf].

  2. Rui Qing, Qiuyi Han, Michael Skuhersky, Haeyoon Chung, Myriam Badr, Thomas Schubert, and Shuguang Zhang. (2019) QTY code designed thermostable and water-soluble chimeric chemokine receptors with tunable ligand affinity. Proceedings of the National Academy of Sciences USA 116. doi: 10.1073/pnas.1909026116. [publisher link] [local pdf].

  3. Shilei Hao, David Jin, Shuguang Zang, and Rui Qing. (2020) QTY code-designed water-soluble Fc-fusion cytokine receptors bind to their respective ligands. QRB Discovery 1, Cambridge University Press. doi: 10.1017/qrd.2020.4. [publisher link] [local pdf].

  4. Lotta T. Tegler, Karolina Corin, Michael Skuhersky, H. Pick, Horst Vogel, & Shuguang Zhang. (2020) The G protein-coupled receptor CXCR4 designed by the QTY code becomes more hydrophilic and retains cell-signaling activity. Scientific Reports UK 10, 21371. doi: 10.1038/s41598-020-77659-x. [local pdf]

  5. Rui Qing, Fei Tao, Pranam Chatterjee, Gaojie Yang, Qiuyi Han, Haeyoon Chung, Jun Ni, Bernard P. Suter, Jan Kubicek, Barbara Maertens, Thomas Schubert, Camron Blackburn, and Shuguang Zhang. (2020) Non-full-length water-soluble CXCR4QTY and CCR5QTY chemokine receptors: Implication for overlooked truncated but functional membrane receptors. iScience, https://doi.org/10.1016/j.isci.2020.101670. [local pdf].

  6. Michael Skuhersky, Fei Tao, Rui Qing, Eva Smorodina, David Jin, and Shuguang Zhang. (2021) Comparing native crystal structures and AlphaFold2 predicted water-soluble G-protein coupled receptor QTY variants. Life 11(12) 10.3390/life11121285. [local pdf]

  7. Fei Tao, Hongzhi Tang, Shuguang Zhang, Mengke Li, & Ping Xu. (2022) Enabling QTY server for designing water-soluble α-helical transmembrane proteins. mBio 13(1) https://journals.asm.org/doi/10.1128/mbio.03604-21. [local pdf]

  8. Zhang, S. & Egli, M. (2022) Hiding in plain sight: three chemically distinct α-helix types. Quarterly Review of Biophysics (QRB) 55, e7.  55EB6C1845791F987565FC5BE93715C4 [local pdf]

  9. Rui Qing, Shilei Hao, Eva Smorodina, Arthur Zalevsky, David Jin, & Shuguang Zhang. (2022) Protein design: from the aspect of water solubility. Chemical Reviews 122, 14085-14179. [local pdf]

  10. Eva Smorodina, Fei Tao, Rui Qing, David Jin, Steve Yang, & Shuguang Zhang (2022) Comparing 2 crystal structures and 12 AlphaFold2 predicted human membrane glucose transporters and their water-soluble QTY variants. QRB Discovery 3, e5, 1-11. [local pdf]

  11. Eva Smorodina, Igor Diankin, Fei Tao, Rui Qing, Steve Yang, & Shuguang Zhang (2022) Structural informatic study of determined and AlphaFold2 predicted molecular structures of 13 human solute carrier transporters and their water-soluble QTY variants. Scientific Reports 12, 20103. doi: 10.1038/s41598-022-23764-y. [local pdf]

  12. Rui Qing, Mantian Xue, Jiayuan Zhao, Lidong Wu, Andreas Breitwieser, Eva Smorodina, Thomas Schubert, Giovanni Azzellino, David Jin, Jing Kong, Tomás Palacios, Uwe B. Sleytr & Shuguang Zhang (2022) Scalable biomimetic sensing system with membrane receptor dual-monolayer probe and graphene transistor arrays Sci. Advances 9,, eadf1402 (21 July 2023). [local pdf]

  13. Run Meng, Shilei Hao, Changfa Sun, Zongkun Hou, Yao Hou, Lili Wang, Peiying Deng, Jia Deng, Yaying Yang, Haijian Xia, Bochu Wang, Rui Qing, & Shuguang Zhang. (2023) Reverse-QTY code design of active human serum albumin self-assembled amphiphilic nanoparticles for effective anti-tumor drug doxorubicin release in mice. PNAS, Vol. 120, No. 21, e220173120, May 15, 2023. https://doi.org/10.1073/pnas.2220173120. [local pdf]

  14. Akash Sajeef-Sheeja, Eva Smorodina, & Shuguang Zhang. (2023) Structural bioinformatics studies of bacterial beta barrel transporters and their AlphaFold2 predicted water-soluble QTY variants PLOS One (August 22, 2023), https://doi.org/10.1371/journal.pone.0290360. [local pdf]

  15. Mengke Li, Yanze Wang, Fei Tao, Ping Xu, Shuguang Zhang. (2023) QTY code designed antibodies for aggregation prevention: A structural bioinformatic and computational study. Proteins 92:2 (First published: 05 October 2023). https://doi.org/10.1002/prot.26603. [local pdf]

  16. Taner Karagol, Alper Karagol, & Shuguang Zhang. (2024) Structural bioinformatics studies of serotonin, dopamine and norepinephrine transporters and their AlphaFold2 predicted water-soluble QTY variants and uncovering the natural mutations of L->Q, I->T, F->Y and Q->L, T->I and Y->F. PLOS One (March 22, 2024). https://doi.org/10.1371/journal.pone.0300340. [local pdf]

  17. Alper Karagöl, Taner Karagöl, Eva Smorodina, & Shuguang Zhang. (2024) Structural bioinformatics studies of glutamate transporters and their AlphaFold2 predicted water-soluble QTY variants and uncovering the natural mutations of L->Q, V->T, F->Y and vice versa. PLOS One (April 10, 2024). https://doi.org/10.1371/journal.pone.0289644. [local pdf]

  18. Emily Pan, Fei Tao, Eva Smorodina, & Shuguang Zhang. (2024) Structural bioinformatics studies of six human ABC transporters and their AlphaFold2 predicted water-soluble QTY variants. QRB Discovery. 2024;5:e1. doi:10.1017/qrd.2024.2. [local pdf]

  19. Mengke Li, Rui Qing, Fei Tao, Ping Xu, Shuguang Zhang, (2024) Inhibitory effect of truncated isoforms on GPCR dimerization predicted by combinatorial computational strategy. Computational and Structural Biotechnology Journal, 23:278-286. https://doi.org/10.1016/j.csbj.2023.12.008. [local pdf]

  20. Eva Smorodina, Fei Tao, Rui Qing, Steve Yang, & Shuguang Zhang (2024) Structural bioinformatics of molecular structures of 6 determined and 12 AlphaFold2 predicted native human potassium channels and their water-soluble QTY variants. Scientific Reports (Under review).