Topic 03 -- Abstracts with Biological Entities (English) - 75 Topics / Sub-Topic Model 55 - 15 Topics

cite ad title authors publish year publish time dataset abstract mentions covid pmcid pubmed id doi cord uid topic weight Similarity scispacy Similarity specter
1 Cleary_2014 Hemiacetal stabilization in a chymotrypsin inhibitor complex and the reactivity of the hydroxyl group of the catalytic serine residue of chymotrypsin Cleary, Jennifer A.; Doherty, William; Evans, Paul; Malthouse, J.Paul G. 2014 2014-06-30 PMC N 24657307.0 10.1016/j.bbapap.2014.03.008 60rfq6kk 0.977840 Cleary_2015, Someya_2008 Buller_2012, Cleary_2015, Someya_2008, Grazioso_2012
2 Cleary_2015 Quantifying tetrahedral adduct formation and stabilization in the cysteine and the serine proteases Cleary, Jennifer A.; Doherty, William; Evans, Paul; Malthouse, J. Paul G. 2015 2015-10-31 PMC N 26169698.0 10.1016/j.bbapap.2015.07.006 6kyrtr86 0.971307 Cleary_2014, Schlieker_2007, Someya_2008 Cleary_2014, Grazioso_2012, Buller_2012
3 Shokhen_2009 Challenging a Paradigm: Theoretical Calculations of the Protonation State of the Cys25-His159 Catalytic Diad in Free Papain Shokhen, Michael; Khazanov, Netaly; Albeck, Amnon 2009 2009-12-01 PMC N PMC2767454 19688822.0 10.1002/prot.22516 h8qsila6 0.960989 Schlieker_2007, Someya_2008 Someya_2008, Kanitz_2019, Myllykoski_2017
4 Buller_2012 Autoproteolytic Activation of ThnT Results in Structural Reorganization Necessary for Substrate Binding and Catalysis Buller, Andrew R.; Labonte, Jason W.; Freeman, Michael F.; Wright, Nathan T.; Schildbach, Joel F.; Townsend, Craig A. 2012 2012-09-28 None N PMC3428426 22706025.0 10.1016/j.jmb.2012.06.012 g0h0itzs 0.908544 Sato_2019, Schlieker_2007 Someya_2008, Myllykoski_2017, Thangapandian_2012, Kanitz_2019
5 Myllykoski_2013 Crystallographic Analysis of the Reaction Cycle of 2′,3′-Cyclic Nucleotide 3′-Phosphodiesterase, a Unique Member of the 2H Phosphoesterase Family Myllykoski, Matti; Raasakka, Arne; Lehtimäki, Mari; Han, Huijong; Kursula, Inari; Kursula, Petri 2013 2013-11-15 PMC N PMC7094350 23831225.0 10.1016/j.jmb.2013.06.012 og8osavo 0.878927 Myllykoski_2017, Kanitz_2019, Buller_2012, Brandmann_2015
6 Uechi_2016 Crystal structure of an acetyl esterase complexed with acetate ion provides insights into the catalytic mechanism Uechi, Keiko; Kamachi, Saori; Akita, Hironaga; Mine, Shouhei; Watanabe, Masahiro 2016 2016-08-26 PMC N PMC7092896 27329813.0 10.1016/j.bbrc.2016.06.093 zugtddop 0.870638 Sato_2019, Schlieker_2007 Buller_2012, Myllykoski_2017, Kanitz_2019
7 Lee_T_2007 Crystal Structures Reveal an Induced-fit Binding of a Substrate-like Aza-peptide Epoxide to SARS Coronavirus Main Peptidase Lee, Ting-Wai; Cherney, Maia M.; Liu, Jie; James, Karen Ellis; Powers, James C.; Eltis, Lindsay D.; James, Michael N.G. 2007 2007-02-23 PMC N PMC7094323 17196984.0 10.1016/j.jmb.2006.11.078 vgnxhksv 0.795158 Lee_T_2005, Kanitz_2019, Zhu_L_2011, Yin_J_2007
8 Taranto_2008 QM/QM studies for Michael reaction in coronavirus main protease (3CLPro) Taranto, Alex G.; Carvalho, Paulo; Avery, Mitchell A. 2008 2008-10-31 PMC N PMC7110475 18567519.0 10.1016/j.jmgm.2008.05.002 82yhugm0 0.697245 Du_Q_2004, Grazioso_2012, Wei_P_2006, Kanitz_2019
9 Myllykoski_2017 Structural aspects of nucleotide ligand binding by a bacterial 2H phosphoesterase Myllykoski, Matti; Kursula, Petri 2017 2017-01-31 COMM-USE N PMC5283653 28141848.0 10.1371/journal.pone.0170355 0a3okta0 0.697013 Buller_2012, Kanitz_2019
10 Katritch_2007 Discovery of small molecule inhibitors of ubiquitin-like poxvirus proteinase I7L using homology modeling and covalent docking approaches Katritch, Vsevolod; Byrd, Chelsea M.; Tseitin, Vladimir; Dai, Dongcheng; Raush, Eugene; Totrov, Maxim; Abagyan, Ruben; Jordan, Robert; Hruby, Dennis E. 2007 2007-10-25 PMC N PMC7087885 17960327.0 10.1007/s10822-007-9138-7 6l8m6n9f 0.628728 van_der_Linden_2014, Becker_2016, Wei_P_2006, Sun_D_2019
11 Yin_J_2006 An Episulfide Cation (Thiiranium Ring) Trapped in the Active Site of HAV 3C Proteinase Inactivated by Peptide-based Ketone Inhibitors Yin, Jiang; Cherney, Maia M.; Bergmann, Ernst M.; Zhang, Jianmin; Huitema, Carly; Pettersson, Hanna; Eltis, Lindsay D.; Vederas, John C.; James, Michael N.G. 2006 2006-08-25 PMC N 16860823.0 10.1016/j.jmb.2006.06.047 m70x79gh 0.628506 Yang_2010, Schlieker_2007, Vaughan_2012, Saura_1999
12 Sato_2019 Structural insights into ubiquitin recognition and Ufd1 interaction of Npl4 Sato, Yusuke; Tsuchiya, Hikaru; Yamagata, Atsushi; Okatsu, Kei; Tanaka, Keiji; Saeki, Yasushi; Fukai, Shuya 2019 2019-12-13 COMM-USE N PMC6910952 31836717.0 10.1038/s41467-019-13697-y xmbetn8q 0.623736 Yan_J_2007 Li_H_2016, Deng_2019
13 Yin_J_2007 A Mechanistic View of Enzyme Inhibition and Peptide Hydrolysis in the Active Site of the SARS-CoV 3C-like Peptidase Yin, Jiang; Niu, Chunying; Cherney, Maia M.; Zhang, Jianmin; Huitema, Carly; Eltis, Lindsay D.; Vederas, John C.; James, Michael N.G. 2007 2007-08-24 PMC N PMC7094781 17599357.0 10.1016/j.jmb.2007.06.001 shkb068s 0.617294 Schlieker_2007, Sato_2019 Kanitz_2019, Lee_T_2005, Lee_T_2007, Wei_P_2006
14 Schmidt_2008 Sensitized Detection of Inhibitory Fragments and Iterative Development of Non‐Peptidic Protease Inhibitors by Dynamic Ligation Screening Schmidt, Marco Florian; Isidro‐Llobet, Albert; Lisurek, Michael; El‐Dahshan, Adeeb; Tan, Jinzhi; Hilgenfeld, Rolf; Rademann, Jörg 2008 2008-03-17 PMC N PMC7159527 18348134.0 10.1002/anie.200704594 7dgbc4um 0.607860
15 Shimamoto_2015 Fused-ring structure of decahydroisoquinolin as a novel scaffold for SARS 3CL protease inhibitors Shimamoto, Yasuhiro; Hattori, Yasunao; Kobayashi, Kazuya; Teruya, Kenta; Sanjoh, Akira; Nakagawa, Atsushi; Yamashita, Eiki; Akaji, Kenichi 2015 2015-02-15 None N PMC7111320 25614110.0 10.1016/j.bmc.2014.12.028 3sgbpn13 0.594645 Yang_2010, Schlieker_2007 Yoshizawa_2020, Niu_C_2008
16 Schlieker_2007 Structure of a Herpesvirus-Encoded Cysteine Protease Reveals a Unique Class of Deubiquitinating Enzymes Schlieker, Christian; Weihofen, Wilhelm A.; Frijns, Evelyne; Kattenhorn, Lisa M.; Gaudet, Rachelle; Ploegh, Hidde L. 2007 2007-03-09 PMC N PMC7110467 17349955.0 10.1016/j.molcel.2007.01.033 2b2d0m7k 0.584058 Sato_2019 Deng_2019, Kanitz_2019, Someya_2008, Lombardi_2013
17 Lee_T_2005 Crystal Structures of the Main Peptidase from the SARS Coronavirus Inhibited by a Substrate-like Aza-peptide Epoxide Lee, Ting-Wai; Cherney, Maia M.; Huitema, Carly; Liu, Jie; James, Karen Ellis; Powers, James C.; Eltis, Lindsay D.; James, Michael N.G. 2005 2005-11-11 PMC N PMC7094542 16219322.0 10.1016/j.jmb.2005.09.004 7ri2p5b8 0.569002 Sato_2019 Lee_T_2007, Zhu_L_2011, Yin_J_2007, Lei_J_2014
18 Dzhekieva_2013 Inhibition of DD-Peptidases by a Specific Trifluoroketone: Crystal Structure of a Complex with the Actinomadura R39 DD-Peptidase() Dzhekieva, Liudmila; Adediran, S. A.; Herman, Raphael; Kerff, Frédéric; Duez, Colette; Charlier, Paulette; Sauvage, Eric; Pratt, R.F. 2013 2013-03-13 PMC N PMC3731424 23484909.0 10.1021/bi400048s yn7x1gdq 0.545096 Schlieker_2007, Cleary_2015 Grazioso_2012, Yin_J_2007, Becker_2016, Lee_T_2005
19 Pang_2004 Three‐dimensional model of a substrate‐bound SARS chymotrypsin‐like cysteine proteinase predicted by multiple molecular dynamics simulations: Catalytic efficiency regulated by substrate binding Pang, Yuan‐Ping 2004 2004-08-13 PMC N PMC7167676 15690493.0 10.1002/prot.20249 8m7a06g9 0.529619
20 Verschueren_2008 A Structural View of the Inactivation of the SARS Coronavirus Main Proteinase by Benzotriazole Esters Verschueren, Koen H.G.; Pumpor, Ksenia; Anemüller, Stefan; Chen, Shuai; Mesters, Jeroen R.; Hilgenfeld, Rolf 2008 2008-06-23 PMC N PMC7110992 18559270.0 10.1016/j.chembiol.2008.04.011 wevcmq30 0.529010 Schlieker_2007 Wei_P_2006, Zhu_L_2011, Lee_T_2005, Grazioso_2012
21 Kanitz_2019 Structural basis for catalysis and substrate specificity of a 3C-like cysteine protease from a mosquito mesonivirus Kanitz, Manuel; Blanck, Sandra; Heine, Andreas; Gulyaeva, Anastasia A.; Gorbalenya, Alexander E.; Ziebuhr, John; Diederich, Wibke E. 2019 2019-07-31 None N PMC7111312 31078932.0 10.1016/j.virol.2019.05.001 1ksfo0pr 0.521913 Sato_2019 Someya_2008, Zunszain_2010
22 Scrima_2004 The structure of the TrmE GTP-binding protein and its implications for tRNA modification Scrima, Andrea; Vetter, Ingrid R; Armengod, M Eugenia; Wittinghofer, Alfred 2004 2004-12-16 PMC N PMC544919 15616586.0 10.1038/sj.emboj.7600507 ovy03sfy 0.515404 Sato_2019 Scrima_2006, Myllykoski_2017, Punekar_2012, Someya_2008
23 Yoshizawa_2020 Evaluation of an octahydroisochromene scaffold used as a novel SARS 3CL protease inhibitor Yoshizawa, Shin-ichiro; Hattori, Yasunao; Kobayashi, Kazuya; Akaji, Kenichi 2020 2020-02-15 PMC N PMC7127348 31926775.0 10.1016/j.bmc.2019.115273 c5m4dj9m 0.511965 Schlieker_2007, Sato_2019 Shimamoto_2015
24 Pai_C_2011 Structure and mechanism of Escherichia coli glutathionylspermidine amidase belonging to the family of cysteine; histidine-dependent amidohydrolases/peptidases Pai, Chien-Hua; Wu, Hsing-Ju; Lin, Chun-Hung; Wang, Andrew H-J 2011 2011-02-16 PMC N PMC3064834 21226054.0 10.1002/pro.589 jglioo0p 0.508092 Sato_2019 Someya_2008, Myllykoski_2017, Buller_2012
25 De_Ferrari_2014 From sequence to enzyme mechanism using multi-label machine learning De Ferrari, Luna; Mitchell, John BO 2014 2014-05-19 COMM-USE N PMC4229970 24885296.0 10.1186/1471-2105-15-150 yjrs7c38 0.497772 Myllykoski_2017, Tremblay-Létourneau_2011
26 Grazioso_2012 Mechanism of falcipain-2 inhibition by α,β-unsaturated benzo[1,4]diazepin-2-one methyl ester Grazioso, Giovanni; Legnani, Laura; Toma, Lucio; Ettari, Roberta; Micale, Nicola; De Micheli, Carlo 2012 2012-09-11 PMC N PMC7088093 22965332.0 10.1007/s10822-012-9596-4 et00ovrr 0.492137 Basak_2009
27 Estrada_2020 Topological Analysis of SARS CoV-2 Main Protease Ernesto Estrada 2020 2020-04-05 BioRxiv Y 10.1101/2020.04.03.023887 x32egf2t 0.482934 Xia_B_2011, Zhu_L_2011
28 Roppongi_2018 Crystal structures of a bacterial dipeptidyl peptidase IV reveal a novel substrate recognition mechanism distinct from that of mammalian orthologues Roppongi, Saori; Suzuki, Yoshiyuki; Tateoka, Chika; Fujimoto, Mayu; Morisawa, Saori; Iizuka, Ippei; Nakamura, Akihiro; Honma, Nobuyuki; Shida, Yosuke; Ogasawara, Wataru; Tanaka, Nobutada; Sakamoto, Yasumitsu; Nonaka, Takamasa 2018 2018-02-09 COMM-USE N PMC5807507 29426867.0 10.1038/s41598-018-21056-y dy8zxpqc 0.478427 Sato_2019 Myllykoski_2017, Yin_J_2007, Kanitz_2019
29 Zunszain_2010 Insights into Cleavage Specificity from the Crystal Structure of Foot-and-Mouth Disease Virus 3C Protease Complexed with a Peptide Substrate Zunszain, Patricia A.; Knox, Stephen R.; Sweeney, Trevor R.; Yang, Jingjie; Roqué-Rosell, Núria; Belsham, Graham J.; Leatherbarrow, Robin J.; Curry, Stephen 2010 2010-01-15 PMC N PMC7099390 19883658.0 10.1016/j.jmb.2009.10.048 e5pb83mj 0.477238 Kanitz_2019
30 Hajjou_1995 Catalytic site studies on tuna (Thunnus albacares) pyloric caeca aminopeptidase Hajjou, Mustapha; Le Gal, Yves 1995 1995-09-06 PMC N 7669802.0 10.1016/0167-4838(95)00099-g sqxe9eys 0.463716 Yang_2010 Someya_2008, Buller_2012, Myllykoski_2017
31 Ge_H_2013 Crystal structure of wild-type and mutant human Ap4A hydrolase Ge, Honghua; Chen, Xiaofang; Yang, Weili; Niu, Liwen; Teng, Maikun 2013 2013-03-01 PMC N PMC7092880 23384440.0 10.1016/j.bbrc.2013.01.095 yrl35s0k 0.462763 Sato_2019, Schlieker_2007 Myllykoski_2017, Someya_2008, Brandmann_2015
32 Cui_W_2019 The crystal structure of main protease from mouse hepatitis virus A59 in complex with an inhibitor Cui, Wen; Cui, Shanshan; Chen, Cheng; Chen, Xia; Wang, Zefang; Yang, Haitao; Zhang, Lei 2019 2019-04-16 PMC N 30833083.0 10.1016/j.bbrc.2019.02.105 52qh907f 0.450707 Hu_X_2016
33 Ohnishi_2019 Evaluation of a non-prime site substituent and warheads combined with a decahydroisoquinolin scaffold as a SARS 3CL protease inhibitor Ohnishi, Kouji; Hattori, Yasunao; Kobayashi, Kazuya; Akaji, Kenichi 2019 2019-01-15 PMC N PMC7126642 30558861.0 10.1016/j.bmc.2018.12.019 960th627 0.447087 Schlieker_2007, Yang_2010, Vaughan_2012 Yoshizawa_2020, Shimamoto_2015
34 Thangapandian_2012 Structural Origins for the Loss of Catalytic Activities of Bifunctional Human LTA4H Revealed through Molecular Dynamics Simulations Thangapandian, Sundarapandian; John, Shalini; Lazar, Prettina; Choi, Sun; Lee, Keun Woo 2012 2012-07-25 COMM-USE N PMC3405069 22848428.0 10.1371/journal.pone.0041063 w9iwmqgq 0.437270 Buller_2012, Someya_2008, Kanitz_2019, Yin_J_2007
35 Tan_J_2005 pH-dependent Conformational Flexibility of the SARS-CoV Main Proteinase (Mpro) Dimer: Molecular Dynamics Simulations and Multiple X-ray Structure Analyses Tan, Jinzhi; Verschueren, Koen H.G.; Anand, Kanchan; Shen, Jianhua; Yang, Maojun; Xu, Yechun; Rao, Zihe; Bigalke, Janna; Heisen, Burkhard; Mesters, Jeroen R.; Chen, Kaixian; Shen, Xu; Jiang, Hualiang; Hilgenfeld, Rolf 2005 2005-11-18 PMC N PMC7094468 16242152.0 10.1016/j.jmb.2005.09.012 uvuamh0p 0.435181 Wei_P_2006, Cheng_2010, Lee_T_2007
36 Zapata-Pérez_2017 Structural and functional analysis of Oceanobacillus iheyensis macrodomain reveals a network of waters involved in substrate binding and catalysis Zapata-Pérez, Rubén; Gil-Ortiz, Fernando; Martínez-Moñino, Ana Belén; García-Saura, Antonio Ginés; Juanhuix, Jordi; Sánchez-Ferrer, Álvaro 2017 2017-04-26 COMM-USE N PMC5413906 28446708.0 10.1098/rsob.160327 gczyfzam 0.434309 Sato_2019 Buller_2012, Myllykoski_2017, Someya_2008, Appel_2016
37 Békés_2016 Recognition of Lys48-Linked Di-ubiquitin and Deubiquitinating Activities of the SARS Coronavirus Papain-like Protease Békés, Miklós; van der Heden van Noort, Gerbrand J.; Ekkebus, Reggy; Ovaa, Huib; Huang, Tony T.; Lima, Christopher D. 2016 2016-05-19 None N PMC4875570 27203180.0 10.1016/j.molcel.2016.04.016 uvhc50qc 0.434204 Sato_2019 Békés_2015, Sato_2019
38 Chen_2010 Discovery of anti‐SARS coronavirus drug based on molecular docking and database screening Chen, Hai‐Feng; Yao, Jian‐Hua; Sun, Jing; Li, Qiang; Li, Feng; Fan, Bo‐Tao; Yuan, Shen‐Gang 2010 2010-08-26 PMC N PMC7162226 10.1002/cjoc.20040220825 go2tsomq 0.434040
39 Scrima_2006 Dimerisation-dependent GTPase reaction of MnmE: how potassium acts as GTPase-activating element Scrima, Andrea; Wittinghofer, Alfred 2006 2006-06-08 PMC N PMC1500855 16763562.0 10.1038/sj.emboj.7601171 gujr2fno 0.428739 Sato_2019 Scrima_2004, Myllykoski_2017, Kanitz_2019, Buller_2012
40 Turlington_2013 Discovery of N-(benzo[1,2,3]triazol-1-yl)-N-(benzyl)acetamido)phenyl) carboxamides as severe acute respiratory syndrome coronavirus (SARS-CoV) 3CLpro inhibitors: Identification of ML300 and noncovalent nanomolar inhibitors with an induced-fit binding Turlington, Mark; Chun, Aspen; Tomar, Sakshi; Eggler, Aimee; Grum-Tokars, Valerie; Jacobs, Jon; Daniels, J. Scott; Dawson, Eric; Saldanha, Adrian; Chase, Peter; Baez-Santos, Yahira M.; Lindsley, Craig W.; Hodder, Peter; Mesecar, Andrew D.; Stauffer, Shaun R. 2013 2013-11-15 None N PMC3878165 24080461.0 10.1016/j.bmcl.2013.08.112 e0qq0d75 0.426117 Schlieker_2007, Ghosh_2007 Grazioso_2012
41 Niu_C_2008 Molecular docking identifies the binding of 3-chloropyridine moieties specifically to the S1 pocket of SARS-CoV Mpro Niu, Chunying; Yin, Jiang; Zhang, Jianmin; Vederas, John C.; James, Michael N.G. 2008 2008-01-01 PMC N PMC7127602 17931870.0 10.1016/j.bmc.2007.09.034 32ju2h1g 0.425598 Zhu_L_2011, Liu_W_2014
42 Paudel_2019 Crystal structure and activity-based labeling reveal the mechanisms for linkage-specific substrate recognition by deubiquitinase USP9X Paudel, Prajwal; Zhang, Qi; Leung, Charles; Greenberg, Harrison C.; Guo, Yusong; Chern, Yi-Hsuan; Dong, Aiping; Li, Yanjun; Vedadi, Masoud; Zhuang, Zhihao; Tong, Yufeng 2019 2019-04-09 None N PMC6462090 30914461.0 10.1073/pnas.1815027116 la0hosa4 0.414564 Sato_2019 Sato_2019, Flierman_2016, Li_H_2016, Buller_2012
43 Wojdyla_2009 Structure of the X (ADRP) domain of nsp3 from feline coronavirus Wojdyla, Justyna A.; Manolaridis, Ioannis; Snijder, Eric J.; Gorbalenya, Alexander E.; Coutard, Bruno; Piotrowski, Yvonne; Hilgenfeld, Rolf; Tucker, Paul A. 2009 2009-12-04 PMC N PMC7161637 19966415.0 10.1107/s0907444909040074 49big4kq 0.411511
44 Hoyer_2007 The Iterative Gramicidin S Thioesterase Catalyzes Peptide Ligation and Cyclization Hoyer, Katharina M.; Mahlert, Christoph; Marahiel, Mohamed A. 2007 2007-01-31 PMC N 17254948.0 10.1016/j.chembiol.2006.10.011 25d52mvn 0.407570 Sato_2019 Buller_2012, Myllykoski_2017
45 Yin_J_2005 Dual Modes of Modification of Hepatitis A Virus 3C Protease by a Serine-derived β-Lactone: Selective Crystallization and Formation of a Functional Catalytic Triad in the Active Site Yin, Jiang; Bergmann, Ernst M.; Cherney, Maia M.; Lall, Manjinder S.; Jain, Rajendra P.; Vederas, John C.; James, Michael N.G. 2005 2005-12-09 PMC N PMC7118759 16288920.0 10.1016/j.jmb.2005.09.074 bcs73g1b 0.407084 Yang_2010 Grazioso_2012, Someya_2008, Kanitz_2019
46 Xue_X_2007 Production of Authentic SARS-CoV Mpro with Enhanced Activity: Application as a Novel Tag-cleavage Endopeptidase for Protein Overproduction Xue, Xiaoyu; Yang, Haitao; Shen, Wei; Zhao, Qi; Li, Jun; Yang, Kailin; Chen, Cheng; Jin, Yinghua; Bartlam, Mark; Rao, Zihe 2007 2007-02-23 PMC N PMC7094453 17189639.0 10.1016/j.jmb.2006.11.073 fjfc3rto 0.398244 Yang_2010 Lin_C_2004, van_der_Linden_2014, Zhu_L_2011
47 Becker_2016 Irreversible inhibitors of the 3C protease of Coxsackie virus through templated assembly of protein-binding fragments Becker, Daniel; Kaczmarska, Zuzanna; Arkona, Christoph; Schulz, Robert; Tauber, Carolin; Wolber, Gerhard; Hilgenfeld, Rolf; Coll, Miquel; Rademann, Jörg 2016 2016-09-28 None N PMC5052702 27677239.0 10.1038/ncomms12761 0oq4kkn5 0.393420 van_der_Linden_2014, Grazioso_2012, Kuo_C_2008
48 Chou_2014 Structural basis for catalysis and ubiquitin recognition by the Severe acute respiratory syndrome coronavirus papain‐like protease Chou, Chi‐Yuan; Lai, Hsing‐Yi; Chen, Hung‐Yi; Cheng, Shu‐Chun; Cheng, Kai‐Wen; Chou, Ya‐Wen 2014 2014-02-17 PMC N PMC7161584 24531491.0 10.1107/s1399004713031040 o60cr7jj 0.384689 Sato_2019, Schlieker_2007
49 Tremblay-Létourneau_2011 Virtual High-Throughput Screening Identifies Mycophenolic Acid as a Novel RNA Capping Inhibitor Tremblay-Létourneau, Maude; Despins, Simon; Bougie, Isabelle; Bisaillon, Martin 2011 2011-09-15 COMM-USE N PMC3174198 21935470.0 10.1371/journal.pone.0024806 4gjo72hx 0.383438 Deng_2019
50 Anand_2002 Structure of coronavirus main proteinase reveals combination of a chymotrypsin fold with an extra α-helical domain Anand, Kanchan; Palm, Gottfried J.; Mesters, Jeroen R.; Siddell, Stuart G.; Ziebuhr, John; Hilgenfeld, Rolf 2002 2002-07-01 PMC N PMC126080 12093723.0 10.1093/emboj/cdf327 2sfqsfm1 0.375337 Sato_2019 Piñón_1997, Tsai_2010, Rozanov_1995
51 Li_H_2016 Allosteric Activation of Ubiquitin-Specific Proteases by β-propeller Proteins UAF1 and WDR20 Li, Heng; Lim, Kah Suan; Kim, Hyungjin; Hinds, Thomas R.; Jo, Ukhyun; Mao, Haibin; Weller, Caroline E.; Sun, Ji; Chatterjee, Champak; D’Andrea, Alan D.; Zheng, Ning 2016 2016-07-01 PMC N PMC4958508 27373336.0 10.1016/j.molcel.2016.05.031 y4v3cmn9 0.371350 Sato_2019 Sato_2019, Myllykoski_2017, Basters_2017
52 Jin_Z_2020 Structural basis for the inhibition of COVID-19 virus main protease by carmofur, an antineoplastic drug Zhenming Jin; Yao Zhao; Yuan Sun; Bing Zhang; Haofeng Wang; Yan Wu; Yan Zhu; Chen Zhu; Tianyu Hu; Xiaoyu Du; Yinkai Duan; Jing Yu; Xiaobao Yang; Xiuna Yang; Xiang Liu; Luke W. Guddat; Gengfu Xiao; Leike Zhang; Haitao Yang; Zihe Rao 2020 2020-04-09 BioRxiv Y 10.1101/2020.04.09.033233 tpp40j0g 0.370849 Kuo_C_2008, van_der_Linden_2014
53 Lee_Y_2017 Crystal structure of the catalytic domain of Clostridium perfringens neuraminidase in complex with a non-carbohydrate-based inhibitor, 2-(cyclohexylamino)ethanesulfonic acid Lee, Youngjin; Youn, Hyung-Seop; Lee, Jung-Gyu; An, Jun Yop; Park, Kyoung Ryoung; Kang, Jung Youn; Ryu, Young Bae; Jin, Mi Sun; Park, Ki Hun; Eom, Soo Hyun 2017 2017-04-29 PMC N PMC7092837 28315686.0 10.1016/j.bbrc.2017.03.064 9yaarxhs 0.366649 Yang_2010 Grazioso_2012, Someya_2008, Kanitz_2019, Yin_J_2005
54 Garman_2005 SARS Proteomics Reveals Viral Secrets Garman, Elspeth 2005 2005-11-30 PMC N PMC7135395 16271880.0 10.1016/j.str.2005.10.004 qkvafy69 0.366587
55 Orlicky_2010 An allosteric inhibitor of substrate recognition by the SCF(Cdc4) ubiquitin ligase Orlicky, Stephen; Tang, Xiaojing; Neduva, Victor; Elowe, Nadine; Brown, Eric; Sicheri, Frank; Tyers, Mike 2010 2010-06-27 PMC N PMC4445864 20581844.0 10.1038/nbt.1646 eyinf0kg 0.362527 Sato_2019 Sato_2019, Li_H_2016, Myllykoski_2017
56 Kasperkiewicz_2017 Emerging challenges in the design of selective substrates, inhibitors and activity‐based probes for indistinguishable proteases Kasperkiewicz, Paulina; Poreba, Marcin; Groborz, Katarzyna; Drag, Marcin 2017 2017-01-29 PMC N PMC7164106 28052575.0 10.1111/febs.14001 jrk8yexx 0.350239 Baek_2014
57 Zhu_L_2011 Peptide aldehyde inhibitors challenge the substrate specificity of the SARS-coronavirus main protease Zhu, Lili; George, Shyla; Schmidt, Marco F.; Al-Gharabli, Samer I.; Rademann, Jörg; Hilgenfeld, Rolf 2011 2011-11-30 PMC N PMC7114241 21854807.0 10.1016/j.antiviral.2011.08.001 71wj0ajq 0.348014 Yang_2010, Vaughan_2012 Kuo_C_2004, Lee_T_2005, Cheng_2010, Wei_P_2006
58 Saikatendu_2005 Structural Basis of Severe Acute Respiratory Syndrome Coronavirus ADP-Ribose-1″-Phosphate Dephosphorylation by a Conserved Domain of nsP3 Saikatendu, Kumar Singh; Joseph, Jeremiah S.; Subramanian, Vanitha; Clayton, Tom; Griffith, Mark; Moy, Kin; Velasquez, Jeffrey; Neuman, Benjamin W.; Buchmeier, Michael J.; Stevens, Raymond C.; Kuhn, Peter 2005 2005-11-30 PMC N PMC7126892 16271890.0 10.1016/j.str.2005.07.022 6fsz9iy7 0.341932
59 Basters_2017 Structural basis for the specificity of USP18 towards ISG15 Basters, Anja; Geurink, Paul P.; Röcker, Annika; Witting, Katharina F.; Tadayon, Roya; Hess, Sandra; Semrau, Marta S.; Storici, Paola; Ovaa, Huib; Knobeloch, Klaus-Peter; Fritz, Günter 2017 2017-02-06 PMC N PMC5405867 28165509.0 10.1038/nsmb.3371 4e5ij2xp 0.338447 Yan_J_2007 Sato_2019, Catic_2007, Deng_2019, Li_H_2016
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69 Zhang_2020 X-ray Structure of Main Protease of the Novel Coronavirus SARS-CoV-2 Enables Design of α-Ketoamide Inhibitors Linlin Zhang; Daizong Lin; Xinyuanyuan Sun; Katharina Rox; Rolf Hilgenfeld 2020 2020-02-20 BioRxiv Y 10.1101/2020.02.17.952879 xhachzby 0.303721 Verschueren_2008, Lee_T_2005, Grazioso_2012, Wei_P_2006
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