Optimize the interactions at S4 with efficient inhibitors targeting 3C proteinase from enterovirus 71
Lanjun Zhang
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
These authors contribute equally to this work.Search for more papers by this authorGuolong Huang
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
These authors contribute equally to this work.Search for more papers by this authorQixu Cai
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
These authors contribute equally to this work.Search for more papers by this authorChen Zhao
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Search for more papers by this authorLiuyun Tang
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Search for more papers by this authorHaixia Ren
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Search for more papers by this authorPeng Li
State Key Laboratory on Lead Compound Research, WuXi AppTech Co., Ltd., Shanghai, 200131 China
Search for more papers by this authorNing Li
State Key Laboratory on Lead Compound Research, WuXi AppTech Co., Ltd., Shanghai, 200131 China
Search for more papers by this authorJianwei Huang
Xianmen Center for Disease Control and Prevention, Shen-guang Road 681-685, Xiamen, 361021 China
Search for more papers by this authorXueqin Chen
Xiamen Hospital of Traditional Chinese Medicine, Xiamen, 361001 China
Fujian University for Traditional Chinese Medicine, Fuzhou, 350004 China
Search for more papers by this authorYi Guan
State Key Laboratory for Emerging Infectious Diseases, The University of Hong Kong, Hong Kong SAR, China
Search for more papers by this authorHan You
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Search for more papers by this authorShuhui Chen
State Key Laboratory on Lead Compound Research, WuXi AppTech Co., Ltd., Shanghai, 200131 China
Search for more papers by this authorCorresponding Author
Jian Li
State Key Laboratory on Lead Compound Research, WuXi AppTech Co., Ltd., Shanghai, 200131 China
Correspondence to: Tianwei Lin, State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University,Xiang'an South Road, Xiang'an District, Xiamen 361102, China.
E-mail: [email protected]
Correspondence to: Jian Li, State Key Laboratory on Lead Compound Research, WuXi AppTech Co. 288 Fute Zhong Road, Waigaoqiao Free Trade Zone, Shanghai 200131, China.
E-mail: [email protected]
Search for more papers by this authorCorresponding Author
Tianwei Lin
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Correspondence to: Tianwei Lin, State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University,Xiang'an South Road, Xiang'an District, Xiamen 361102, China.
E-mail: [email protected]
Correspondence to: Jian Li, State Key Laboratory on Lead Compound Research, WuXi AppTech Co. 288 Fute Zhong Road, Waigaoqiao Free Trade Zone, Shanghai 200131, China.
E-mail: [email protected]
Search for more papers by this authorLanjun Zhang
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
These authors contribute equally to this work.Search for more papers by this authorGuolong Huang
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
These authors contribute equally to this work.Search for more papers by this authorQixu Cai
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
These authors contribute equally to this work.Search for more papers by this authorChen Zhao
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Search for more papers by this authorLiuyun Tang
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Search for more papers by this authorHaixia Ren
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Search for more papers by this authorPeng Li
State Key Laboratory on Lead Compound Research, WuXi AppTech Co., Ltd., Shanghai, 200131 China
Search for more papers by this authorNing Li
State Key Laboratory on Lead Compound Research, WuXi AppTech Co., Ltd., Shanghai, 200131 China
Search for more papers by this authorJianwei Huang
Xianmen Center for Disease Control and Prevention, Shen-guang Road 681-685, Xiamen, 361021 China
Search for more papers by this authorXueqin Chen
Xiamen Hospital of Traditional Chinese Medicine, Xiamen, 361001 China
Fujian University for Traditional Chinese Medicine, Fuzhou, 350004 China
Search for more papers by this authorYi Guan
State Key Laboratory for Emerging Infectious Diseases, The University of Hong Kong, Hong Kong SAR, China
Search for more papers by this authorHan You
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Search for more papers by this authorShuhui Chen
State Key Laboratory on Lead Compound Research, WuXi AppTech Co., Ltd., Shanghai, 200131 China
Search for more papers by this authorCorresponding Author
Jian Li
State Key Laboratory on Lead Compound Research, WuXi AppTech Co., Ltd., Shanghai, 200131 China
Correspondence to: Tianwei Lin, State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University,Xiang'an South Road, Xiang'an District, Xiamen 361102, China.
E-mail: [email protected]
Correspondence to: Jian Li, State Key Laboratory on Lead Compound Research, WuXi AppTech Co. 288 Fute Zhong Road, Waigaoqiao Free Trade Zone, Shanghai 200131, China.
E-mail: [email protected]
Search for more papers by this authorCorresponding Author
Tianwei Lin
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University, Xiamen, Fujian, China
Correspondence to: Tianwei Lin, State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, State-Province Joint Engineering Laboratory of Targeted Drugs from Natural Products, School of Life Sciences, Xiamen University,Xiang'an South Road, Xiang'an District, Xiamen 361102, China.
E-mail: [email protected]
Correspondence to: Jian Li, State Key Laboratory on Lead Compound Research, WuXi AppTech Co. 288 Fute Zhong Road, Waigaoqiao Free Trade Zone, Shanghai 200131, China.
E-mail: [email protected]
Search for more papers by this authorAbstract
Enterovirus 71 (EV71) is the causative agent of hand, foot and mouth disease and can spread its infections to the central nervous and other systems with severe consequences. The replication of EV71 depends on its 3C proteinase (3Cpro), a significant drug target. By X-ray crystallography and functional assays, the interactions between inhibitors and EV71 3Cpro were evaluated. It was shown that improved interactions at S4 for the substrate binding could significantly enhance the potency. A new series of potent inhibitors with high ligand efficiency was generated for developing antivirals to treat and control the EV71-associated diseases. Copyright © 2016 John Wiley & Sons, Ltd.
References
- The CCP4 suite: programs for protein crystallography. 1994. Acta Crystallogr. D Biol. Crystallogr. 50: 760–763.
- Emsley P, Lohkamp B, Scott WG, Cowtan K. 2010. Features and development of Coot. Acta Crystallogr. D Biol. Crystallogr. 66: 486–501.
- Hopkins AL, Groom CR, Alex A. 2004. Ligand efficiency: a useful metric for lead selection. Drug Discov. Today 9: 430–431.
- Kuo CJ, Shie JJ, Fang JM, Yen GR, Hsu JT, Liu HG, Tseng SN, Chang SC, Lee CY, Shih SR, Liang PH. 2008. Design, synthesis, and evaluation of 3C protease inhibitors as anti-enterovirus 71 agents. Bioorg. Med. Chem. 16: 7388–7398.
- Lebedev AA, Young P, Isupov MN, Moroz OV, Vagin AA, Murshudov GN. 2012. JLigand: a graphical tool for the CCP4 template-restraint library. Acta Crystallogr. D Biol. Crystallogr. 68: 431–440.
- Lu G, Qi J, Chen Z, Xu X, Gao F, Lin D, Qian W, Liu H, Jiang H, Yan J, Gao GF. 2011. Enterovirus 71 and coxsackievirus A16 3C proteases: binding to rupintrivir and their substrates and anti-hand, foot, and mouth disease virus drug design. J. Virol. 85: 10319–10331.
- Matthews DA, Dragovich PS, Webber SE, Fuhrman SA, Patick AK, Zalman LS, Hendrickson TF, Love RA, Prins TJ, Marakovits JT, Zhou R, Tikhe J, Ford CE, Meador JW, Ferre RA, Brown EL, Binford SL, Brothers MA, DeLisle DM, Worland ST. 1999. Structure-assisted design of mechanism-based irreversible inhibitors of human rhinovirus 3C protease with potent antiviral activity against multiple rhinovirus serotypes. Proc. Natl. Acad. Sci. U. S. A. 96: 11000–11007.
- Mccoy AJ, Grosse-Kunstleve RW, Adams PD, Winn MD, Storoni LC, Read RJ. 2007. Phaser crystallographic software. J. Appl. Crystallogr. 40: 658–674.
- Murshudov GN, Skubak P, Lebedev AA, Pannu NS, Steiner RA, Nicholls RA, Winn MD, Long F, Vagin AA. 2011. REFMAC5 for the refinement of macromolecular crystal structures. Acta Crystallogr. D Biol. Crystallogr. 67: 355–367.
- Murshudov GN, Vagin AA, Dodson EJ. 1997. Refinement of macromolecular structures by the maximum-likelihood method. Acta Crystallogr. D Biol. Crystallogr. 53: 240–255.
- Racaniello VR. 2006. Picornavirdae: the viruses and their replication, Fields Virology, 5th edn. Lippincott Williams & Wilkins: Philadelphia.
- Thomson Drug Report. http://thomsonreuters.com/en.html.
- Schechter I, Berger A. 1967. On the size of the active site in proteases. I. Papain. Biochem. Biophys. Res. Commun. 27: 157–162.
- Schrodinger, LLC The PyMOL Molecular Graphics System. https://sourceforge.net/projects/pymol/.
- Weng KF, Li ML, Hung CT, Shih SR. 2009. Enterovirus 71 3C protease cleaves a novel target CstF-64 and inhibits cellular polyadenylation. PLoS Pathog. 5 e1000593: .
- Yang S, Chen SJ, Hsu MF, Wu JD, Tseng CT, Liu YF, Chen HC, Kuo CW, Wu CS, Chang LW, Chen WC, Liao SY, Chang TY, Hung HH, Shr HL, Liu CY, Huang YA, Chang LY, Hsu JC, Peters CJ, Wang AH, Hsu MC. 2006. Synthesis, crystal structure, structure-activity relationships, and antiviral activity of a potent SARS coronavirus 3CL protease inhibitor. J. Med. Chem. 49: 4971–4980.
- Yang Y, Liang Y, Qu L, Chen Z, Yi M, Li K, Lemon SM. 2007. Disruption of innate immunity due to mitochondrial targeting of a picornaviral protease precursor. Proc. Natl. Acad. Sci. U. S. A. 104: 7253–7258.
- Zunszain PA, Knox SR, Sweeney TR, Yang J, Roque-Rosell N, Belsham GJ, Leatherbarrow RJ, Curry S. 2010. Insights into cleavage specificity from the crystal structure of foot-and-mouth disease virus 3C protease complexed with a peptide substrate. J. Mol. Biol. 395: 375–389.