Topic 55 -- Abstracts with Biological Entities (English) - 75 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 Kikkert_2013 Chapter 497 Arterivirus nsp2 Cysteine Proteinase Kikkert, Marjolein; Snijder, Eric J.; Gorbalenya, Alexander E. 2013 2013-12-31 PMC N PMC7150351 10.1016/b978-0-12-382219-2.00500-7 f5gz8es9 0.947010 Frey_2013, Pong_2011, Choudhury_2017, Gorbalenya_1988 Nedialkova_2013, Nedialkova_2013, Snijder_2013, Ratia_2013
2 Stobart_2013 Chapter 546 Coronavirus Picornain-like Cysteine Proteinase Stobart, Christopher C.; Denison, Mark R. 2013 2013-12-31 PMC N PMC7149994 10.1016/b978-0-12-382219-2.00544-5 01plpnzu 0.946885 Murray_2017, Frey_2013, Kikkert_2013, Snijder_2013 Nedialkova_2013, Nedialkova_2013, Kikkert_2013, Ratia_2013
3 Delmas_2013 Chapter 779 Birnavirus VP4 Processing Endopeptidase Delmas, Bernard; Mundt, Egbert; Gorbalenya, Alexander E. 2013 2013-12-31 PMC N PMC7150322 10.1016/b978-0-12-382219-2.00779-1 i5gfaicu 0.942329 Murray_2017, Frey_2013, Pong_2011, Stork_2011, Kikkert_2013 Nedialkova_2013, Nedialkova_2013, Kikkert_2013, Yin_J_2013
4 Rawlings_2013 Chapter 404 Introduction The Clans and Families of Cysteine Peptidases Rawlings, Neil D.; Barrett, Alan J. 2013 2013-12-31 PMC N 10.1016/b978-0-12-382219-2.00404-x 9gtsqyfj 0.932039 Murray_2017, Lipsitch_2014, Rodier_2007, Mooney_2013 Nedialkova_2013, Kikkert_2013, Nedialkova_2013, Ratia_2013
5 Snijder_2013 Chapter 691 Arterivirus Serine Endopeptidase Snijder, Eric J.; Gorbalenya, Alexander E. 2013 2013-12-31 PMC N PMC7150272 10.1016/b978-0-12-382219-2.00691-8 92990iiy 0.923079 Pong_2011, Frey_2013, Ryu_W_2017, Stork_2011, Shi_S_2005 Nedialkova_2013, Nedialkova_2013, Kikkert_2013, Yin_J_2013
6 Yin_J_2013 Chapter 542 Hepatitis A Virus Picornain 3C Yin, Jiang; Bergmann, Ernst M. 2013 2013-12-31 PMC N PMC7149673 10.1016/b978-0-12-382219-2.00540-8 1jzsci7a 0.883446 Lipsitch_2014, Pong_2011, Frey_2013, Murray_2017, Kang_2009 Nedialkova_2013, Nedialkova_2013, Kikkert_2013, Ratia_2013
7 Nedialkova_2013 Chapter 496 Arterivirus Papain-like Proteinase 1β Nedialkova, Danny D.; Gorbalenya, Alexander E.; Snijder, Eric J. 2013 2013-12-31 PMC N PMC7150162 10.1016/b978-0-12-382219-2.00499-3 vain6pc1 0.860179 Frey_2013, Kikkert_2013, Murray_2017, Pong_2011, Shi_S_2005 Nedialkova_2013, Kikkert_2013, Ratia_2013, Yin_J_2013
8 Someya_2008 Saturation Mutagenesis reveals that GLU54 of Norovirus 3C-like Protease is not Essential for the Proteolytic Activity Someya, Yuichi; Takeda, Naokazu; Wakita, Takaji 2008 2008-10-06 PMC N PMC7109903 18838436.0 10.1093/jb/mvn130 hiy7f4wh 0.851832 Smith_2003, Yang_2010, UNKNOWN_1987, Sato_2019 Piñón_1997
9 Nedialkova_2013 Chapter 495 Arterivirus Papain-like Proteinase 1α Nedialkova, Danny D.; Gorbalenya, Alexander E.; Snijder, Eric J. 2013 2013-12-31 PMC N PMC7149378 10.1016/b978-0-12-382219-2.00498-1 lohhfx0n 0.847075 Frey_2013, Kikkert_2013, Pong_2011, Shi_S_2005, Taschuk_2020 Nedialkova_2013, Kikkert_2013, Ratia_2013, Mielech_2014
10 Antalis_2013 Chapter 654 DESC1 and HAT Peptidases Antalis, Toni M.; Martin, Erik W.; Hodge, Kathryn M. 2013 2013-12-31 PMC N PMC7150303 10.1016/b978-0-12-382219-2.00654-2 f4r4uikg 0.841429 Murray_2017, Lipsitch_2014, Rawlings_2013, Polverino_2017 Kikkert_2013, Nedialkova_2013, Rawlings_2013, Nedialkova_2013
11 Ratia_2013 Chapter 494 Coronavirus Papain-like Peptidases Ratia, Kiira; Mesecar, Andrew; O’Brien, Amornrat; Baker, Susan C. 2013 2013-12-31 PMC N PMC7149924 10.1016/b978-0-12-382219-2.00493-2 p1fttfpr 0.839860 Frey_2013, Murray_2017, Kikkert_2013, Choudhury_2017 Nedialkova_2013, Nedialkova_2013, Kikkert_2013, Stobart_2013
12 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 0.813587 Smith_2003, Ivarsson_2012, Sato_2019, Schlieker_2007 Myllykoski_2017, Someya_2008, Brandmann_2015, Tong_2009
13 Strauss_2013 Chapter 504 Sindbis Virus nsP2 Endopeptidase Strauss, Ellen G.; Strauss, James H. 2013 2013-12-31 PMC N 10.1016/b978-0-12-382219-2.00494-4 7d4o2747 0.805274 Murray_2017, Lipsitch_2014, Ryu_W_2017, Frey_2013
14 Kessler_2013 Chapter 477 Otubains Kessler, Benedikt M. 2013 2013-12-31 PMC N PMC7149335 10.1016/b978-0-12-382219-2.00476-2 nbmii9jc 0.800916 Choudhury_2017, Turcu_2009, Ivarsson_2012, Blank_2017, Lindner_2007 Nedialkova_2013, Kikkert_2013, Nedialkova_2013, Yin_J_2013
15 Tautz_2013 Chapter 690 Pestivirus NS2-3/NS3 Serine Peptidase Tautz, Norbert; Thiel, Heinz-Jürgen 2013 2013-12-31 PMC N PMC7150157 10.1016/b978-0-12-382219-2.00690-6 5fkwr60m 0.797945 Frey_2013, Pong_2011, Ryu_W_2017, Murray_2017 Nedialkova_2013, Kikkert_2013, Nedialkova_2013
16 Brown_2013 Chapter 642 Coagulation Factor Xa Brown, Mark A.; Stenberg, Leisa M.; Stenflo, Johan 2013 2013-12-31 PMC N PMC7149769 10.1016/b978-0-12-382219-2.00642-6 ntsn7oga 0.797564 Lipsitch_2014, Murray_2017, Mooney_2013, Polverino_2017, Rawlings_2013 Clarke_2013, Nedialkova_2013, Nedialkova_2013, Antalis_2011
17 Ye_S_2012 Identification and characterization of Iflavirus 3C-like protease processing activities Ye, Shan; Xia, Hongjie; Dong, Chen; Cheng, Zhenyun; Xia, Xiaoling; Zhang, Jiamin; Zhou, Xi; Hu, Yuanyang 2012 2012-07-05 PMC N PMC7111971 22534091.0 10.1016/j.virol.2012.04.002 g2yta1ra 0.792376 Pong_2011, Yang_2010, Kang_2009, Stork_2011, Meyerson_2017 van_der_Linden_2014, Sun_D_2019, Sun_D_2016
18 Frey_2013 Chapter 501 Rubella Virus Non-Structural Protease Frey, Teryl K 2013 2013-12-31 PMC N 10.1016/b978-0-12-382219-2.00495-6 h9078ozy 0.790963 Pong_2011, Kang_2009, Gorbalenya_1988, Ryu_W_2017
19 Chen_2010 Liberation of SARS-CoV main protease from the viral polyprotein: N-terminal autocleavage does not depend on the mature dimerization mode Chen, Shuai; Jonas, Felix; Shen, Can; Higenfeld, Rolf 2010 2010-01-01 PMC N PMC4875104 21203998.0 10.1007/s13238-010-0011-4 6kkzh1tp 0.788392 Smith_2003, UNKNOWN_1987, Volmer_2010, Yang_2010, Kang_2009 Piñón_1997
20 Kuang_2005 Mutational and inhibitive analysis of SARS coronavirus 3C-like protease by fluorescence resonance energy transfer-based assays Kuang, Wan-Fen; Chow, Lu-Ping; Wu, Mei-Hua; Hwang, Lih-Hwa 2005 2005-06-17 PMC N PMC7092943 15883050.0 10.1016/j.bbrc.2005.04.072 ieucykbf 0.786318 Pong_2011, Yang_2010, Cheng_2005, Meyerson_2017 Lin_C_2004, van_der_Linden_2014, Zhu_L_2011, Wei_P_2006
21 García-Sastre_2013 Chapter 499 Nairovirus Deubiquitinylating Peptidase García-Sastre, Adolfo; Macleod, Jesica M. Levingston 2013 2013-12-31 PMC N PMC7150130 10.1016/b978-0-12-382219-2.00502-0 h5dp1qhb 0.770255 Ryu_W_2017, Crowe_2014, Potgieter_1986, Wang_2015, Walker_2010 Nedialkova_2013, Kikkert_2013, Nedialkova_2013, Ratia_2013, Yin_J_2013
22 Malet_2006 Expression, purification and crystallization of the SARS-CoV macro domain Malet, Hélène; Dalle, Karen; Brémond, Nicolas; Tocque, Fabienne; Blangy, Stéphanie; Campanacci, Valérie; Coutard, Bruno; Grisel, Sacha; Lichière, Julie; Lantez, Violaine; Cambillau, Christian; Canard, Bruno; Egloff, Marie-Pierre 2006 2006-03-25 PMC N PMC2222557 16582497.0 10.1107/s1744309106009274 r8a6n9c4 0.769871 Gorbalenya_1988, UNKNOWN_1987, Shi_S_2005, Pong_2011, Volmer_2010 Voß_D_2009, Chen_2009, Yang_2009
23 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 0.761141 Sato_2019, Smith_2003, Choudhury_2017, Ivarsson_2012, Blank_2017 Sato_2019, Flierman_2016, Li_H_2016, Buller_2012
24 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 0.758326 Smith_2003, Ivarsson_2012, Blank_2017, Choudhury_2017, Sato_2019 Buller_2012, Myllykoski_2017, Someya_2008, Appel_2016
25 Hewings_2017 Activity‐based probes for the ubiquitin conjugation–deconjugation machinery: new chemistries, new tools, and new insights Hewings, David S.; Flygare, John A.; Bogyo, Matthew; Wertz, Ingrid E. 2017 2017-03-10 PMC N PMC7163952 28196299.0 10.1111/febs.14039 7m8bdd9y 0.754635 Choudhury_2017, Blank_2017, Lindner_2007, Turcu_2009, Hodul_2017
26 Golubtsov_2006 Characterization of the cysteine protease domain of Semliki Forest virus replicase protein nsP2 by in vitro mutagenesis Golubtsov, Andrey; Kääriäinen, Leevi; Caldentey, Javier 2006 2006-02-20 PMC N PMC7118720 16466719.0 10.1016/j.febslet.2006.01.071 j3hmkfty 0.750741 Yang_2010, Volmer_2010, Kang_2009, Stork_2011, Chang_2000 Someya_2008
27 Zhao_2012 Specificity of the E1-E2-E3 Enzymatic Cascade for Ubiquitin C-terminal Sequences Identified by Phage Display Zhao, Bo; Bhuripanyo, Karan; Schneider, Jeffrey; Zhang, Keya; Schindelin, Hermann; Boone, David; Yin, Jun 2012 2012-10-02 PMC N PMC4652587 23003343.0 10.1021/cb300339p 0mu5muvo 0.745275 Smith_2003, UNKNOWN_1987, Ivarsson_2012, Sato_2019, Blank_2017 Sato_2019, Someya_2008, Catic_2007, Drag_2008
28 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 0.732845 Ivarsson_2012, UNKNOWN_1987, Smith_2003, Chan_2016, Guo_Y_2013 Lee_T_2005, Kanitz_2019, Zhu_L_2011, Yin_J_2007
29 Shan_2004 A novel auto-cleavage assay for studying mutational effects on the active site of severe acute respiratory syndrome coronavirus 3C-like protease Shan, Yu-Fei; Li, Shou-Feng; Xu, Gen-Jun 2004 2004-11-12 PMC N PMC7092848 15474466.0 10.1016/j.bbrc.2004.09.088 ukco9p7s 0.731870 Smith_2003, Yang_2010, Pong_2011, UNKNOWN_1987 Someya_2008, van_der_Linden_2014, Wei_P_2006
30 Lim_K_1998 Characterization of the Two Overlapping Papain-like Proteinase Domains Encoded in Gene 1 of the Coronavirus Infectious Bronchitis Virus and Determination of the C-Terminal Cleavage Site of an 87-kDa Protein Lim, K.P.; Liu, D.X. 1998 1998-06-05 PMC N PMC7131824 9636369.0 10.1006/viro.1998.9164 8l5gtrmg 0.717371 Yang_2010, UNKNOWN_1987, Luytjes_1988, Morikawa_1992, Chang_2000 Piñón_1997
31 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 0.712275 Yang_2010, Schlieker_2007, Vaughan_2012, Saura_1999, Smith_2003
32 Lin_J_2020 UL36 Encoded by Marek’s Disease Virus Exhibits Linkage-Specific Deubiquitinase Activity Lin, Junyan; Ai, Yongxing; Zhou, Hongda; Lv, Yan; Wang, Menghan; Xu, Jiacui; Yu, Cong; Zhang, Huanmin; Wang, Mengyun 2020 2020-03-05 COMM-USE N PMC7084888 32150874.0 10.3390/ijms21051783 isf1n15n 0.709526 Yan_J_2007, Smith_2003, Yang_2010, Greene_2012, Sato_2019 Deng_2019, Yu_L_2017
33 Muramatsu_2013 Autoprocessing mechanism of severe acute respiratory syndrome coronavirus 3C‐like protease (SARS‐CoV 3CL (pro)) from its polyproteins Muramatsu, Tomonari; Kim, Yong‐Tae; Nishii, Wataru; Terada, Takaho; Shirouzu, Mikako; Yokoyama, Shigeyuki 2013 2013-03-27 PMC N PMC7164132 23452147.0 10.1111/febs.12222 qd61qvch 0.703348 Volmer_2010, UNKNOWN_1987, Vaughan_2012, Yang_2010, Kang_2009
34 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 0.700772 Sato_2019, Smith_2003, Ivarsson_2012, Choudhury_2017 Deng_2019, Kanitz_2019, Someya_2008, Lombardi_2013
35 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 0.697997 Smith_2003, Ivarsson_2012, UNKNOWN_1987, Sato_2019, Wang_2014 Lee_T_2007, Zhu_L_2011, Yin_J_2007, Lei_J_2014
36 Kwasna_2018 Discovery and Characterization of ZUFSP/ZUP1, a Distinct Deubiquitinase Class Important for Genome Stability Kwasna, Dominika; Abdul Rehman, Syed Arif; Natarajan, Jayaprakash; Matthews, Stephen; Madden, Ross; De Cesare, Virginia; Weidlich, Simone; Virdee, Satpal; Ahel, Ivan; Gibbs-Seymour, Ian; Kulathu, Yogesh 2018 2018-04-05 COMM-USE N PMC5896202 29576527.0 10.1016/j.molcel.2018.02.023 9z350ucm 0.697592 Choudhury_2017, Blank_2017, Yan_J_2007, Sato_2019, Smith_2003 Sato_2019, Deng_2019, Yan_J_2020
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 0.695823 Sato_2019, Choudhury_2017, Pong_2011, Meyerson_2017, Smith_2003 Békés_2015, Sato_2019
38 Yu_K_2012 Purification, crystallization and preliminary X-ray analysis of nonstructural protein 2 (nsp2) from avian infectious bronchitis virus Yu, Kun; Ming, Zhenhua; Li, Yuanyuan; Chen, Cheng; Bao, Zehua; Ren, Zhilin; Liu, Bofeng; Tao, Wei; Rao, Zihe; Lou, Zhiyong 2012 2012-05-24 PMC N PMC3370919 22684079.0 10.1107/s1744309112018623 nei7zrnn 0.694504 Ryu_W_2017, Volmer_2010, Crowe_2014, Armesto_2007, Li_C_2013 Yang_2009, Ma_Y_2010, Wei_L_2008, Huo_T_2015
39 Piotrowski_2008 Crystal structures of the X-domains of a Group-1 and a Group-3 coronavirus reveal that ADP-ribose-binding may not be a conserved property Piotrowski, Yvonne; Hansen, Guido; Boomaars-van der Zanden, A Linda; Snijder, Eric J; Gorbalenya, Alexander E; Hilgenfeld, Rolf 2008 2008-01-01 PMC N PMC2708038 19177346.0 10.1002/pro.15 zt9fg3qs 0.693250 Ryu_W_2017, Pong_2011, Gorbalenya_1988, Volmer_2010, Crowe_2014 Yang_2009, Brandmann_2015
40 Drag_2008 Positional-scanning fluorogenic substrate libraries reveal unexpected specificity determinants of deubiquitinating enzymes (DUBs) Drag, Marcin; Mikolajczyk, Jowita; Bekes, Miklos; Reyes-Turcu, Francisca E.; Ellman, Jonathan A.; Wilkinson, Keith D.; Salvesen, Guy S. 2008 2008-10-15 PMC N PMC2766241 18601651.0 10.1042/bj20080779 hgnri5ch 0.689341 Choudhury_2017, Sato_2019, Blank_2017, Smith_2003, Yan_J_2007 Flierman_2016, Sato_2019, Deng_2019
41 Carrington_1992 Characterization of the potyviral HC-pro autoproteolytic cleavage site Carrington, James C.; Herndon, Kerri L. 1992 1992-03-31 PMC N 1736533.0 10.1016/0042-6822(92)90319-k vv5j1awz 0.687021 Luytjes_1988, Yang_2010, Morikawa_1992, Gorbalenya_1988
42 Hu_T_2009 Two adjacent mutations on the dimer interface of SARS coronavirus 3C-like protease cause different conformational changes in crystal structure Hu, Tiancen; Zhang, Yu; Li, Lianwei; Wang, Kuifeng; Chen, Shuai; Chen, Jing; Ding, Jianping; Jiang, Hualiang; Shen, Xu 2009 2009-06-05 PMC N PMC7103376 19409595.0 10.1016/j.virol.2009.03.034 qk8g4c7e 0.685443 Smith_2003, Pong_2011, Gomis-Rüth_2003, Ivarsson_2012, Volmer_2010 Someya_2008, Chen_2008, Wei_P_2006, Cheng_2010
43 Wang_2014 Crystallization and preliminary crystallographic study of human coronavirus NL63 main protease in complex with an inhibitor Wang, Fenghua; Tan, Yusheng; Li, Huiyan; Chen, Xia; Wang, Jinshan; Li, Shuang; Fu, Sheng; Zhao, Qi; Chen, Cheng; Su, Dan; Yang, Haitao 2014 2014-07-23 PMC N PMC4118806 25084384.0 10.1107/s2053230x14012953 ulua84c8 0.684312 Crowe_2014, Ryu_W_2017, Pong_2011, Meyerson_2017, Shi_S_2005 Wang_2014, Yu_K_2012, Yang_2009
44 Chisholm_2001 Expression and partial purification of recombinant tomato ringspot nepovirus 3C-like proteinase: comparison of the activity of the mature proteinase and the VPg-proteinase precursor Chisholm, Joan; Wieczorek, Andrew; Sanfaçon, Hélène 2001 2001-11-05 PMC N 11551656.0 10.1016/s0168-1702(01)00344-6 3jelm70c 0.682368 Yang_2010, Stork_2011, Morikawa_1992, UNKNOWN_1987, Pong_2011
45 Wei_L_2008 Purification, crystallization and preliminary crystallographic analysis of avian infectious bronchitis virus nsp3 ADRP domain Wei, Lei; Chen, Cheng; Zhao, Qi; Li, Chun; Cong, Le; Xu, Xiaoling; Ma, Yanlin; Liao, Ming; Xu, Yuanyuan; Rao, Zihe 2008 2008-08-09 PMC N PMC2531276 18765908.0 10.1107/s1744309108024391 7pklrmz5 0.678447 Hewson_2007, Gorbalenya_1988, Wurch_1991, Kang_2009, Li_C_2013 Yang_2009, Yu_K_2012
46 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 0.675567 Yang_2010, Smith_2003, Yang_2012, UNKNOWN_1987, Vaughan_2012 Kuo_C_2004, Lee_T_2005, Cheng_2010, Wei_P_2006
47 Woo_P_2013 In Silico Analysis of ORF1ab in Coronavirus HKU1 Genome Reveals a Unique Putative Cleavage Site of Coronavirus HKU1 3C‐Like Protease Woo, Patrick C.Y.; Huang, Yi; Lau, Susanna K.P.; Tsoi, Hoi‐wah; Yuen, Kwok‐yung 2013 2013-11-14 PMC Y PMC7168382 16237267.0 10.1111/j.1348-0421.2005.tb03681.x 09ots6oj 0.674027 Morikawa_1992, Gorbalenya_1988, Luytjes_1988, Firth_2009, Krause_1987
48 Saisawang_2015 Chikungunya nsP2 protease is not a papain-like cysteine protease and the catalytic dyad cysteine is interchangeable with a proximal serine Saisawang, Chonticha; Saitornuang, Sawanan; Sillapee, Pornpan; Ubol, Sukathida; Smith, Duncan R.; Ketterman, Albert J. 2015 2015-11-24 COMM-USE N PMC4657084 26597768.0 10.1038/srep17125 a097byk5 0.673096 Pong_2011, Kang_2009, Yang_2010, Meyerson_2017 Someya_2008, Rozanov_1995
49 Gayathri_2006 Crystal structure of the serine protease domain of Sesbania mosaic virus polyprotein and mutational analysis of residues forming the S1-binding pocket Gayathri, P.; Satheshkumar, P.S.; Prasad, K.; Nair, Smita; Savithri, H.S.; Murthy, M.R.N. 2006 2006-03-15 PMC N PMC7111806 16356524.0 10.1016/j.virol.2005.11.011 livz5zuu 0.670986 Yang_2010, UNKNOWN_1987, Kang_2009, Vaughan_2012, Smith_2003 Someya_2008, Rozanov_1995
50 Ratia_2014 Structural Basis for the Ubiquitin-Linkage Specificity and deISGylating Activity of SARS-CoV Papain-Like Protease Ratia, Kiira; Kilianski, Andrew; Baez-Santos, Yahira M.; Baker, Susan C.; Mesecar, Andrew 2014 2014-05-22 COMM-USE N PMC4031219 24854014.0 10.1371/journal.ppat.1004113 2nxz69aq 0.668992 Ban_J_2018, Choudhury_2017, Meyerson_2017, Smith_2003, Blank_2017 Yu_L_2017, Deng_2019
51 Akaji_2008 Evaluation of peptide-aldehyde inhibitors using R188I mutant of SARS 3CL protease as a proteolysis-resistant mutant Akaji, Kenichi; Konno, Hiroyuki; Onozuka, Mari; Makino, Ayumi; Saito, Hiroyuki; Nosaka, Kazuto 2008 2008-11-01 PMC N PMC7126698 18845442.0 10.1016/j.bmc.2008.09.057 0w04si16 0.667460 Yang_2010, UNKNOWN_1987, Vaughan_2012, Lu_Y_1997, Chang_2000 Someya_2008, van_der_Linden_2014, Wei_P_2006
52 Xu_T_2005 Structure of the SARS coronavirus main proteinase as an active C(2) crystallographic dimer Xu, Ting; Ooi, Amy; Lee, Hooi Chen; Wilmouth, Rupert; Liu, Ding Xiang; Lescar, Julien 2005 2005-10-20 PMC N PMC1978130 16511208.0 10.1107/s1744309105033257 i3w7beuj 0.667429 Gomis-Rüth_2003, Pong_2011, Kang_2009, UNKNOWN_1987, Volmer_2010 Wei_P_2006, Graziano_2006, Xia_B_2011, Lee_T_2007
53 Clasman_2017 X-ray Structure and Enzymatic Activity Profile of a Core Papain-like Protease of MERS Coronavirus with utility for structure-based drug design Clasman, Jozlyn R.; Báez-Santos, Yahira M.; Mettelman, Robert C.; O’Brien, Amornrat; Baker, Susan C.; Mesecar, Andrew D. 2017 2017-01-12 COMM-USE N PMC5228125 28079137.0 10.1038/srep40292 eyhoz1tb 0.667150 Smith_2003, Ivarsson_2012, Pong_2011, Kang_2009, Choudhury_2017 Someya_2008, Kanitz_2019, Lei_J_2014
54 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 0.664750 Smith_2003, Sato_2019, Ivarsson_2012, Blank_2017, Yang_2012 Someya_2008, Myllykoski_2017, Buller_2012
55 Flierman_2016 Non-hydrolyzable Diubiquitin Probes Reveal Linkage-Specific Reactivity of Deubiquitylating Enzymes Mediated by S2 Pockets Flierman, Dennis; van der Heden van Noort, Gerbrand J.; Ekkebus, Reggy; Geurink, Paul P.; Mevissen, Tycho E.T.; Hospenthal, Manuela K.; Komander, David; Ovaa, Huib 2016 2016-04-21 None N PMC4850247 27066941.0 10.1016/j.chembiol.2016.03.009 og6wzc67 0.664105 Choudhury_2017, Ivarsson_2012, Sato_2019, Smith_2003 Drag_2008, Békés_2016, Sato_2019, Paudel_2019
56 Chen_2006 The rubella virus nonstructural protease recognizes itself via an internal sequence present upstream of the cleavage site for trans-activity Chen, H. H.; Stark, C. J.; Atreya, C. D. 2006 2006-03-27 PMC N PMC7086818 16570206.0 10.1007/s00705-006-0744-9 vnz15x84 0.659761 Luytjes_1988, Yang_2010, Morikawa_1992, UNKNOWN_1987
57 Lee_C_2007 Structural basis of mercury- and zinc-conjugated complexes as SARS-CoV 3C-like protease inhibitors Lee, Cheng-Chung; Kuo, Chih-Jung; Hsu, Min-Feng; Liang, Po-Huang; Fang, Jim-Min; Shie, Jiun-Jie; Wang, Andrew H.-J. 2007 2007-11-27 PMC N PMC7094272 17981158.0 10.1016/j.febslet.2007.10.048 9lw756zk 0.651721 Smith_2003, Sato_2019, Ivarsson_2012, Schlieker_2007, Gomis-Rüth_2003 Grazioso_2012, Lee_C_2009, Lee_H_2013, Im_I_2009
58 Paesen_2015 X-ray structure and activities of an essential Mononegavirales L-protein domain Paesen, Guido C.; Collet, Axelle; Sallamand, Corinne; Debart, Françoise; Vasseur, Jean-Jacques; Canard, Bruno; Decroly, Etienne; Grimes, Jonathan M. 2015 2015-11-09 None N PMC4659945 26549102.0 10.1038/ncomms9749 1taxqkk2 0.649556 Blank_2017, Gorbalenya_1988, Morikawa_1992, Hou_L_2014, Smith_2003 Sun_D_2016, Kanitz_2019
59 Ye_G_2016 Structural basis for the dimerization and substrate recognition specificity of porcine epidemic diarrhea virus 3C-like protease Ye, Gang; Deng, Feng; Shen, Zhou; Luo, Rui; Zhao, Ling; Xiao, Shaobo; Fu, Zhen F.; Peng, Guiqing 2016 2016-07-31 PMC N PMC7111274 27128350.0 10.1016/j.virol.2016.04.018 xfnbv6o9 0.649556 Ryu_W_2017, Tallmadge_2008, Pong_2011, Crowe_2014 van_der_Linden_2014, Lin_C_2004
60 Turner_2013 Chapter 79 Aminopeptidase N Turner, Anthony J. 2013 2013-12-31 PMC N PMC7150183 10.1016/b978-0-12-382219-2.00079-x fdr0th19 0.647048 Murray_2017, Kikkert_2013, Frey_2013, Lipsitch_2014 Kikkert_2013, Nedialkova_2013, Nedialkova_2013, Yin_J_2013
61 Hassink_2005 TEB4 is a C4HC3 RING finger-containing ubiquitin ligase of the endoplasmic reticulum Hassink, Gerco; Kikkert, Marjolein; Voorden, Sjaak van; Lee, Shiow-Ju; Spaapen, Robbert; Laar, Theo van; Coleman, Catherine S.; Bartee, Eric; Früh, Klaus; Chau, Vincent; Wiertz, Emmanuel 2005 2005-05-24 PMC N PMC1138973 15673284.0 10.1042/bj20041241 go7o1827 0.646304 Choudhury_2017, Sato_2019, Yan_J_2007, Smith_2003 Sato_2019, Fu_J_2000
62 Lu_Y_1997 Determinants of Mouse Hepatitis Virus 3C-like Proteinase Activity Lu, Yiqi; Denison, Mark R. 1997 1997-04-14 PMC N PMC7131224 9143289.0 10.1006/viro.1997.8479 mfptcw8t 0.645937 Yang_2010, Luytjes_1988, Pong_2011, Zhou_2011 Piñón_1997, Someya_2008
63 Piñón_1999 Further Requirements for Cleavage by the Murine Coronavirus 3C-like Proteinase: Identification of a Cleavage Site within ORF1b Piñón, Josefina D.; Teng, Henry; Weiss, Susan R. 1999 1999-10-25 PMC N PMC7131300 10544119.0 10.1006/viro.1999.9954 xpj6c0vx 0.639139 Morikawa_1992, Pong_2011, Yang_2010, Luytjes_1988, Stork_2011 Piñón_1997, Teng_2002
64 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 0.637603 Smith_2003, Yang_2010, Chan_2016, Gomis-Rüth_2003, Pong_2011 Grazioso_2012, Someya_2008, Kanitz_2019
65 Tian_2007 Molecular cloning, expression, purification and crystallographic analysis of PRRSV 3CL protease Tian, Xinsheng; Feng, Youjun; Zhao, Tiezhu; Peng, Hao; Yan, Jinghua; Qi, Jianxun; Jiang, Fan; Tian, Kegong; Gao, Feng 2007 2007-07-28 PMC N PMC2335157 17671377.0 10.1107/s1744309107033234 4yxda0mf 0.637109 Hewson_2007, Kang_2009, Li_C_2013, Pong_2011, Gorbalenya_1988 Yu_K_2012, Sun_D_2019, van_der_Linden_2014
66 Chen_2005 Enzymatic activity characterization of SARS coronavirus 3C-like protease by fluorescence resonance energy transfer technique Chen, Shuai; Chen, Li-li; Luo, Hai-bin; Sun, Tao; Chen, Jing; Ye, Fei; Cai, Jian-hua; Shen, Jing-kang; Shen, Xu; Jiang, Hua-liang 2005 2005-01-23 PMC N PMC7091904 15659121.0 10.1111/j.1745-7254.2005.00010.x 35u01je6 0.636838 Yang_2010, Largo_2016, Abou-Hamdan_2018, Choudhury_2011, David_2013 Kuang_2005, Kuo_C_2009, Lin_C_2004
67 Zhang_2010 (1)H, (13)C and (15)N resonance assignments of SARS-CoV main protease N-terminal domain Zhang, Shengnan; Zhong, Nan; Ren, Xiaobai; Jin, Changwen; Xia, Bin 2010 2010-12-23 PMC N PMC7091140 21181312.0 10.1007/s12104-010-9287-9 iy57tjx5 0.632330 UNKNOWN_1987, Pong_2011, Smith_2003, Yang_2010, Hao_W_2017 Zhong_2009, Lee_T_2007
68 Chen_2011 Biochemical and Structural Insights into the Mechanisms of SARS Coronavirus RNA Ribose 2′-O-Methylation by nsp16/nsp10 Protein Complex Chen, Yu; Su, Ceyang; Ke, Min; Jin, Xu; Xu, Lirong; Zhang, Zhou; Wu, Andong; Sun, Ying; Yang, Zhouning; Tien, Po; Ahola, Tero; Liang, Yi; Liu, Xinqi; Guo, Deyin 2011 2011-10-13 COMM-USE N PMC3192843 22022266.0 10.1371/journal.ppat.1002294 db7stx56 0.630936 Pong_2011, Stork_2011, Yasuda-Inoue_2013, Gorbalenya_1988, Meyerson_2017 Subissi_2014
69 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 0.629384 Ivarsson_2012, Rytkönen_2007, Baek_2014, Taschuk_2020
70 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 0.627713 UNKNOWN_1987, Volmer_2010, Gomis-Rüth_2003, Callison_1999, Dokland_2004
71 Cheng_2010 Mutation of Glu-166 Blocks the Substrate-Induced Dimerization of SARS Coronavirus Main Protease Cheng, Shu-Chun; Chang, Gu-Gang; Chou, Chi-Yuan 2010 2010-04-07 None N PMC2849084 20371333.0 10.1016/j.bpj.2009.12.4272 xrb8zibf 0.624514 Smith_2003, Ivarsson_2012, Sato_2019, UNKNOWN_1987, Chan_2016 Wei_P_2006, Someya_2008, van_der_Linden_2014
72 Wang_2009 Expression, crystallization and preliminary crystallographic study of human coronavirus HKU1 nonstructural protein 9 Wang, Wei; Wei, Lei; Yang, Anqi; He, Teng; Yuen, K. Y.; Chen, Cheng; Rao, Zihe 2009 2009-04-28 PMC N PMC2675602 19407394.0 10.1107/s1744309109014055 5xltdxwk 0.622384 Crowe_2014, Hewson_2007, Ryu_W_2017, Gorbalenya_1988 Yu_K_2012, Yang_2009, Ma_Y_2010
73 Wu_A_2015 Prediction and biochemical analysis of putative cleavage sites of the 3C-like protease of Middle East respiratory syndrome coronavirus Wu, Andong; Wang, Yi; Zeng, Cong; Huang, Xingyu; Xu, Shan; Su, Ceyang; Wang, Min; Chen, Yu; Guo, Deyin 2015 2015-10-02 PMC N PMC7114542 26036787.0 10.1016/j.virusres.2015.05.018 0bx704ao 0.619967 Pong_2011, Gorbalenya_1988, Morikawa_1992, Stork_2011
74 Kuo_C_2015 Characterization and Inhibition of the Main Protease of Severe Acute Respiratory Syndrome Coronavirus Kuo, Chih‐Jung; Liang, Po‐Huang 2015 2015-02-25 PMC N PMC7159133 10.1002/cben.201400031 lgrk3w7w 0.618472 Naito_2007, Berkhout_2006, Kang_2009, Yang_2010, Volmer_2010
75 Ng_L_2000 Further Characterization of the Coronavirus Infectious Bronchitis Virus 3C-like Proteinase and Determination of a New Cleavage Site Ng, Lisa F.P.; Liu, D.X. 2000 2000-06-20 PMC N PMC7131205 10873746.0 10.1006/viro.2000.0330 s71ail2e 0.617977 Yang_2010, Volmer_2010, UNKNOWN_1987, Kang_2009, Chen_2015 Piñón_1997, Lim_K_1998
76 Shan_2005 Study on Substrate Specificity at Subsites for Severe Acute Respiratory Syndrome Coronavirus 3CL Protease Shan, Yu-Fei; Xu, Gen-Jun 2005 2005-12-23 PMC N PMC7109883 16331324.0 10.1111/j.1745-7270.2005.00114.x 32z5llgd 0.614414 Smith_2003, Wu_G_2005, Yang_2012, UNKNOWN_1987 van_der_Linden_2014, Someya_2008
77 Ricagno_2006 Crystallization and preliminary X-ray diffraction analysis of Nsp15 from SARS coronavirus Ricagno, Stéfano; Coutard, Bruno; Grisel, Sacha; Brémond, Nicolas; Dalle, Karen; Tocque, Fabienne; Campanacci, Valérie; Lichière, Julie; Lantez, Violaine; Debarnot, Claire; Cambillau, Christian; Canard, Bruno; Egloff, Marie-Pierre 2006 2006-03-25 PMC N PMC2222560 16582498.0 10.1107/s1744309106009407 bk601l5a 0.613503 Pong_2011, Armesto_2007, Gorbalenya_1988, Stork_2011, Keep_2014 Yang_2009, Yu_K_2012, Ma_Y_2010, Huo_T_2015
78 Zhang_2010 Three-dimensional domain swapping as a mechanism to lock the active conformation in a super-active octamer of SARS-CoV main protease Zhang, Shengnan; Zhong, Nan; Xue, Fei; Kang, Xue; Ren, Xiaobai; Chen, Jiaxuan; Jin, Changwen; Lou, Zhiyong; Xia, Bin 2010 2010-04-01 PMC N PMC4875095 21203949.0 10.1007/s13238-010-0044-8 gdmp0re0 0.612673 UNKNOWN_1987, Pong_2011, Gomis-Rüth_2003, Ivarsson_2012, Stork_2011 Zhong_2009, Lee_T_2007, Kanitz_2019, Tsai_2010
79 Lin_C_2004 Characterization of trans- and cis-cleavage activity of the SARS coronavirus 3CLpro protease: basis for the in vitro screening of anti-SARS drugs Lin, Cheng-Wen; Tsai, Chang-Hai; Tsai, Fuu-Jen; Chen, Pei-Jer; Lai, Chien-Chen; Wan, Lei; Chiu, Hua-Hao; Lin, Kuan-Hsun 2004 2004-09-10 PMC Y PMC7127318 15358553.0 10.1016/j.febslet.2004.08.017 kczhig5k 0.609596 Pong_2011, Kang_2009, Meyerson_2017, Stork_2011, Brockway_2005 van_der_Linden_2014, Kuang_2005, Zhu_L_2011
80 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 0.606023 Ivarsson_2012, Smith_2003, Chan_2016, Sato_2019, Schlieker_2007 Someya_2008, Myllykoski_2017, Thangapandian_2012, Kanitz_2019
81 Wei_P_2006 The N-terminal octapeptide acts as a dimerization inhibitor of SARS coronavirus 3C-like proteinase Wei, Ping; Fan, Keqiang; Chen, Hao; Ma, Liang; Huang, Changkang; Tan, Lei; Xi, Dong; Li, Chunmei; Liu, Ying; Cao, Aoneng; Lai, Luhua 2006 2006-01-20 PMC N PMC7092940 16329994.0 10.1016/j.bbrc.2005.11.102 67brxejx 0.605079 Smith_2003, Pong_2011, Ivarsson_2012, Kang_2009, Yang_2010 Cheng_2010, van_der_Linden_2014, Someya_2008
82 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 0.605002 Smith_2003, Yan_J_2007, Ivarsson_2012, Blank_2017 Li_H_2016, Deng_2019, Choudhury_2017
83 Catic_2007 Screen for ISG15-crossreactive Deubiquitinases Catic, André; Fiebiger, Edda; Korbel, Gregory A.; Blom, Daniël; Galardy, Paul J.; Ploegh, Hidde L. 2007 2007-07-25 COMM-USE N PMC1919423 17653289.0 10.1371/journal.pone.0000679 z5klydpi 0.604889 Choudhury_2017, Blank_2017, Yan_J_2007, Greene_2012, Ban_J_2018 Basters_2017, Deng_2019, Catic_2007
84 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 0.604815 Pong_2011, Naito_2007, Schlieker_2007, Ghosh_2007 Grazioso_2012, Paramonova_2017, Novikov_2013, Konno_2013
85 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 0.602602 Gorbalenya_1988, Pong_2011, Volmer_2010, Hao_W_2017, UNKNOWN_1987
86 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 0.601917 Ivarsson_2012, Blank_2017, Sato_2019, Gorbalenya_1988, UNKNOWN_1987 Myllykoski_2017, Yin_J_2007, Kanitz_2019
87 Hu_X_2016 Kinetic, Mutational, and Structural Studies of the Venezuelan Equine Encephalitis Virus Nonstructural Protein 2 Cysteine Protease Hu, Xin; Compton, Jaimee R.; Leary, Dagmar H.; Olson, Mark A.; Lee, Michael S.; Cheung, Jonah; Ye, Wenjuan; Ferrer, Mark; Southall, Noel; Jadhav, Ajit; Glass, Pamela J.; Marugan, Juan; Legler, Patricia M. 2016 2016-05-19 PMC N PMC5290728 27030368.0 10.1021/acs.biochem.5b00992 156utn7m 0.601028 Yang_2010, Smith_2003, UNKNOWN_1987, Vaughan_2012, Pong_2011
88 Basters_2018 USP18 – a multifunctional component in the interferon response Basters, Anja; Knobeloch, Klaus-Peter; Fritz, Günter 2018 2018-11-16 COMM-USE N PMC6240716 30126853.0 10.1042/bsr20180250 dgesq1sg 0.600784 Choudhury_2017, Blank_2017, Ban_J_2018, Yan_J_2007 Deng_2019, Mielech_2014, Basters_2017
89 Raghav_2015 Chalcones, semicarbazones and pyrazolines as inhibitors of cathepsins B, H and L Raghav, Neera; Kaur, Ravinder 2015 2015-09-30 PMC N PMC7124378 26193682.0 10.1016/j.ijbiomac.2015.07.029 g4omlaht 0.600646 Pager_2006, Yang_2010, Saura_1999, Vidal-Albalat_2016 Grazioso_2012, Vidal-Albalat_2016, Song_2012, Kishore_Kumar_2010
90 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 0.598940 Cleary_2014, Smith_2003, Schlieker_2007, Someya_2008 Cleary_2014, Grazioso_2012, Buller_2012, Lee_G_2012
91 Zhong_2009 C-terminal domain of SARS-CoV main protease can form a 3D domain-swapped dimer Zhong, Nan; Zhang, Shengnan; Xue, Fei; Kang, Xue; Zou, Peng; Chen, Jiaxuan; Liang, Chao; Rao, Zihe; Jin, Changwen; Lou, Zhiyong; Xia, Bin 2009 2009-01-01 PMC N PMC2762595 19319935.0 10.1002/pro.76 3xc9y5mo 0.598503 UNKNOWN_1987, Ivarsson_2012, Smith_2003, Gomis-Rüth_2003, Sato_2019 Voß_D_2009, Tsai_2010
92 Geurink_2019 Chapter Sixteen Profiling DUBs and Ubl-specific proteases with activity-based probes Geurink, Paul P.; van der Heden van Noort, Gerbrand J.; Mulder, Monique P.C.; Knaap, Robert C.M.; Kikkert, Marjolein; Ovaa, Huib 2019 2019-12-31 PMC N PMC7112362 30850060.0 10.1016/bs.mie.2018.12.037 2lovfbsq 0.597683 Choudhury_2017, Lindner_2007, Bailey-Elkin_2017, Viswanathan_2010, Taschuk_2020 Catic_2007, Flierman_2016, Edelmann_2008
93 Yu_L_2017 The papain-like protease of avian infectious bronchitis virus has deubiquitinating activity Yu, Liping; Zhang, Xiaorong; Wu, Tianqi; Wang, Yuyang; Meng, Jie; Liu, Qian; Niu, Xiaosai; Wu, Yantao 2017 2017-03-18 PMC N PMC7087251 28316013.0 10.1007/s00705-017-3328-y cz1bi0ym 0.597602 Ban_J_2018, Meyerson_2017, Greene_2012, Volmer_2010, Pong_2011 Mielech_2014, Deng_2019
94 Strauss_1992 Identification of the active site residues in the nsP2 proteinase of sindbis virus Strauss, Ellen G.; De Groot, Raoul J.; Levinson, Randy; Strauss, James H. 1992 1992-12-31 PMC N PMC7131396 1448929.0 10.1016/0042-6822(92)90268-t qcy56ui7 0.596264 Yang_2010, Volmer_2010, Zhou_2011, Kang_2009 Rozanov_1995
95 Catic_2007 ElaD, a Deubiquitinating Protease Expressed by E. coli Catic, André; Misaghi, Shahram; Korbel, Gregory A.; Ploegh, Hidde L. 2007 2007-04-18 COMM-USE N PMC1847702 17440617.0 10.1371/journal.pone.0000381 s4y6uxsb 0.594598 Gorbalenya_1988, Choudhury_2017, Taschuk_2020, Mushegian_2018, Dolja_2006 Mielech_2014, Deng_2019, Catic_2007, Yu_L_2017
96 Rawlings_1994 [2] Families of serine peptidases Rawlings, Neil D.; Barrett, Alan J. 1994 1994-12-31 PMC N 10.1016/0076-6879(94)44004-2 k1csodeb 0.593096 Mönttinen_2019, Rawlings_2019, Rawlings_1994, Schlieker_2007 Myllykoski_2017
97 Kristariyanto_2017 A single MIU motif of MINDY‐1 recognizes K48‐linked polyubiquitin chains Kristariyanto, Yosua Adi; Abdul Rehman, Syed Arif; Weidlich, Simone; Knebel, Axel; Kulathu, Yogesh 2017 2017-01-12 PMC N PMC5331195 28082312.0 10.15252/embr.201643205 0mz8eo6y 0.586403 Sato_2019, Ivarsson_2012, Smith_2003, Choudhury_2017, Yan_J_2007 Sato_2019, Flierman_2016, Choudhury_2017
98 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 0.586403 Choudhury_2017, Yan_J_2007, Ban_J_2018, Blank_2017, Smith_2003 Sato_2019, Catic_2007, Deng_2019, Li_H_2016
99 Lockwood_2019 Biguanide is a modifiable pharmacophore for recruitment of endogenous Zn(2+) to inhibit cysteinyl cathepsins: review and implications Lockwood, Thomas D. 2019 2019-05-01 COMM-USE N PMC6647370 31044334.0 10.1007/s10534-019-00197-1 pt33u9t1 0.584661 Smith_2003, Ivarsson_2012, Sato_2019, Schlieker_2007, Ho_S_2009 Grazioso_2012, Basak_2009, Buller_2012
100 Debarnot_2011 Crystallization and diffraction analysis of the SARS coronavirus nsp10–nsp16 complex Debarnot, Claire; Imbert, Isabelle; Ferron, François; Gluais, Laure; Varlet, Isabelle; Papageorgiou, Nicolas; Bouvet, Mickaël; Lescar, Julien; Decroly, Etienne; Canard, Bruno 2011 2011-02-25 PMC N PMC3053173 21393853.0 10.1107/s1744309111002867 cnj0e0s9 0.584080 Pong_2011, Stork_2011, Gorbalenya_1988, Yasuda-Inoue_2013, Kang_2009 Ricagno_2006, Yu_K_2012, Sutton_2004
101 Lim_L_2019 Structurally- and dynamically-driven allostery of the chymotrypsin-like proteases of SARS, Dengue and Zika viruses Lim, Liangzhong; Gupta, Garvita; Roy, Amrita; Kang, Jian; Srivastava, Shagun; Shi, Jiahai; Song, Jianxing 2019 2019-05-31 PMC N PMC7111307 30217495.0 10.1016/j.pbiomolbio.2018.08.009 3aydbdmu 0.582669 Pong_2011, Vaughan_2012, Meyerson_2017, Stork_2011, Kang_2009 Tsai_2010, Someya_2008, Yu_L_2017
102 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 0.581221 Smith_2003, Ivarsson_2012, Choudhury_2017, Blank_2017, Sato_2019 Sato_2019, Myllykoski_2017, Basters_2017
103 Zhang_2020 Alpha-ketoamides as broad-spectrum inhibitors of coronavirus and enterovirus replication Linlin Zhang; Daizong Lin; Yuri Kusov; Yong Nian; Qingjun Ma; Jiang Wang; Albrecht von Brunn; Pieter Leyssen; Kristina Lanko; Johan Neyts; Adriaan de Wilde; Eric J. Snijder; Hong Liu; Rolf Hilgenfeld 2020 2020-02-10 BioRxiv N 10.1101/2020.02.10.936898 7n8p9okf 0.580282 Naito_2007, Yang_2010, Volmer_2010, Rice_1992, Kang_2009 van_der_Linden_2014, Zhang_2020, Kuo_C_2008
104 Clarke_2013 Chapter 100 Angiotensin-Converting Enzyme-2 Clarke, Nicola E.; Hooper, Nigel M.; Turner, Anthony J. 2013 2013-12-31 PMC N PMC7150073 10.1016/b978-0-12-382219-2.00100-9 pfsztifl 0.578960 Murray_2017, Lipsitch_2014, Frey_2013, Kikkert_2013, David_2013 Zhao_2008, Macours_2004, Lai_Z_2009, Liu_P_2017
105 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 0.578954 Sato_2019, Smith_2003, Ivarsson_2012, Schlieker_2007, UNKNOWN_1987
106 Zhang_2020 α-Ketoamides as Broad-Spectrum Inhibitors of Coronavirus and Enterovirus Replication: Structure-Based Design, Synthesis, and Activity Assessment Zhang, Linlin; Lin, Daizong; Kusov, Yuri; Nian, Yong; Ma, Qingjun; Wang, Jiang; von Brunn, Albrecht; Leyssen, Pieter; Lanko, Kristina; Neyts, Johan; de Wilde, Adriaan; Snijder, Eric J.; Liu, Hong; Hilgenfeld, Rolf 2020 2020-02-11 None N PMC7098070 32045235.0 10.1021/acs.jmedchem.9b01828 ou61mf3k 0.578954 Naito_2007, Yang_2010, Volmer_2010, Rice_1992, Kang_2009 Zhang_2020, van_der_Linden_2014, Kuo_C_2008
107 Lee_C_2009 Structural Basis of Inhibition Specificities of 3C and 3C-like Proteases by Zinc-coordinating and Peptidomimetic Compounds Lee, Cheng-Chung; Kuo, Chih-Jung; Ko, Tzu-Ping; Hsu, Min-Feng; Tsui, Yao-Chen; Chang, Shih-Cheng; Yang, Syaulan; Chen, Shu-Jen; Chen, Hua-Chien; Hsu, Ming-Chu; Shih, Shin-Ru; Liang, Po-Huang; Wang, Andrew H.-J. 2009 2009-01-14 PMC N PMC2658058 19144641.0 10.1074/jbc.m807947200 2d1sio6w 0.578471 Pong_2011, Kang_2009, Ryu_W_2017, Li_C_2013, Meyerson_2017 Kuo_C_2008, van_der_Linden_2014, Kanitz_2019, Grazioso_2012
108 Liu_D_1998 Proteolytic Mapping of the Coronavirus Infectious Bronchitis Virus 1b Polyprotein: Evidence for the Presence of Four Cleavage Sites of the 3C-like Proteinase and Identification of Two Novel Cleavage Products Liu, D.X.; Shen, S.; Xu, H.Y.; Wang, S.F. 1998 1998-07-05 PMC N PMC7131314 9657947.0 10.1006/viro.1998.9199 v3uo38zw 0.576426 Luytjes_1988, Wurch_1991, Yang_2010, Firth_2009, Lee_H_1991 Lim_K_1998
109 Wu_C_2013 Mechanism for controlling the monomer–dimer conversion of SARS coronavirus main protease Wu, Cheng‐Guo; Cheng, Shu‐Chun; Chen, Shiang‐Chuan; Li, Juo‐Yan; Fang, Yi‐Hsuan; Chen, Yau‐Hung; Chou, Chi‐Yuan 2013 2013-05-01 PMC N PMC7161611 23633583.0 10.1107/s0907444913001315 baqlezoj 0.576161 Ivarsson_2012, Smith_2003, UNKNOWN_1987, Gomis-Rüth_2003, Sato_2019
110 Ghosh_2007 Structure-based design, synthesis, and biological evaluation of peptidomimetic SARS-CoV 3CLpro inhibitors Ghosh, Arun K.; Xi, Kai; Grum-Tokars, Valerie; Xu, Xiaoming; Ratia, Kiira; Fu, Wentao; Houser, Katherine V.; Baker, Susan C.; Johnson, Michael E.; Mesecar, Andrew D. 2007 2007-11-01 None N PMC2112940 17855091.0 10.1016/j.bmcl.2007.08.031 lfhy70b5 0.575058 Pong_2011, Ramajayam_2010, Kuang_2005, Stork_2011 Thanigaimalai_2013, Ramajayam_2010, Konno_2016, Konno_2013
111 Subramanian_2009 Hemoglobin Cleavage Site-Specificity of the Plasmodium falciparum Cysteine Proteases Falcipain-2 and Falcipain-3 Subramanian, Shoba; Hardt, Markus; Choe, Youngchool; Niles, Richard K.; Johansen, Eric B.; Legac, Jennifer; Gut, Jiri; Kerr, Iain D.; Craik, Charles S.; Rosenthal, Philip J. 2009 2009-04-09 COMM-USE N PMC2663817 19357776.0 10.1371/journal.pone.0005156 zvs5qe8x 0.574845 Yang_2012, Smith_2003, Yang_2010, Saura_1999 Grazioso_2012
112 Eckei_2017 The conserved macrodomains of the non-structural proteins of Chikungunya virus and other pathogenic positive strand RNA viruses function as mono-ADP-ribosylhydrolases Eckei, Laura; Krieg, Sarah; Bütepage, Mareike; Lehmann, Anne; Gross, Annika; Lippok, Barbara; Grimm, Alexander R.; Kümmerer, Beate M.; Rossetti, Giulia; Lüscher, Bernhard; Verheugd, Patricia 2017 2017-02-02 COMM-USE N PMC5288732 28150709.0 10.1038/srep41746 avn3mnj8 0.572660 Meyerson_2017, Stork_2011, Yasuda-Inoue_2013, Pong_2011, Kang_2009 Xia_H_2015, Sun_D_2016
113 Wang_2014 Crystallization and preliminary crystallographic study of Feline infectious peritonitis virus main protease in complex with an inhibitor Wang, Jinshan; Wang, Fenghua; Tan, Yusheng; Chen, Xia; Zhao, Qi; Fu, Sheng; Li, Shuang; Chen, Cheng; Yang, Haitao 2014 2014-11-14 PMC N PMC4259223 25484209.0 10.1107/s2053230x14022390 18zmvlmk 0.570382 Ryu_W_2017, Volmer_2010, Lu_P_2016, Meyerson_2017, Pong_2011 Valle-Casuso_2020, Chen_2019, Li_J_2006
114 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 0.566837 Smith_2003, Schlieker_2007, Pong_2011, Sato_2019, Ivarsson_2012 Kanitz_2019, Lee_T_2005, Lee_T_2007, Wei_P_2006
115 Wei_C_2013 Substrate specificity of Tulane virus protease Wei, Chao; Meller, Jarek; Jiang, Xi 2013 2013-02-05 PMC N PMC3545077 23141588.0 10.1016/j.virol.2012.10.010 degxirlx 0.564876 Rice_1992, Stork_2011, Pong_2011, Tallmadge_2008, Yang_2010 van_der_Linden_2014
116 Renzi_2006 Large-scale purification and crystallization of the endoribonuclease XendoU: troubleshooting with His-tagged proteins Renzi, Fabiana; Panetta, Gianna; Vallone, Beatrice; Brunori, Maurizio; Arceci, Massimo; Bozzoni, Irene; Laneve, Pietro; Caffarelli, Elisa 2006 2006-02-28 PMC N PMC2197201 16511328.0 10.1107/s1744309106006373 7haq0e38 0.563318 Stork_2011, Gorbalenya_1988, Pong_2011, Volmer_2010, Staple_2005 Piñón_1997, Someya_2008, Guarino_2005
117 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 0.562772 Pong_2011, Morikawa_1992, Stork_2011, Ivarsson_2012, Gorbalenya_1988 Kanitz_2019
118 Tian_2009 Structure and Cleavage Specificity of the Chymotrypsin-Like Serine Protease (3CLSP/nsp4) of Porcine Reproductive and Respiratory Syndrome Virus (PRRSV) Tian, Xinsheng; Lu, Guangwen; Gao, Feng; Peng, Hao; Feng, Youjun; Ma, Guangpeng; Bartlam, Mark; Tian, Kegong; Yan, Jinghua; Hilgenfeld, Rolf; Gao, George F. 2009 2009-10-02 PMC N PMC7094510 19646449.0 10.1016/j.jmb.2009.07.062 w8ukokl7 0.561294 Pong_2011, Gorbalenya_1988, Kang_2009, UNKNOWN_1987, Volmer_2010 Piñón_1997
119 Rawlings_1994 [32] Families of cysteine peptidases Rawlings, Neil D.; Barrett, Alan J. 1994 1994-12-31 PMC N 7845226.0 10.1016/0076-6879(94)44034-4 8opigfsg 0.560521 Schlieker_2007, Rawlings_1994, Ivarsson_2012, UNKNOWN_1987
120 Needle_2015 Structures of the Middle East respiratory syndrome coronavirus 3C-like protease reveal insights into substrate specificity Needle, Danielle; Lountos, George T.; Waugh, David S. 2015 2015-04-24 None N PMC4427198 25945576.0 10.1107/s1399004715003521 1stnmrkk 0.559206 Pong_2011, UNKNOWN_1987, Gorbalenya_1988, Morikawa_1992, Volmer_2010 Thornbrough_2016
121 Tibbles_1999 Activity of a purified His-tagged 3C-like proteinase from the coronavirus infectious bronchitis virus Tibbles, K.W; Cavanagh, D; Brown, T.D.K 1999 1999-04-30 PMC N PMC7126649 10392722.0 10.1016/s0168-1702(99)00011-8 d56ci0hl 0.557803 Morikawa_1992, Vennema_1991, Luytjes_1988, Yang_2010 Piñón_1997, van_der_Linden_2014
122 Renatus_2006 Structural Basis of Ubiquitin Recognition by the Deubiquitinating Protease USP2 Renatus, Martin; Parrado, Shirley Gil; D'Arcy, Allan; Eidhoff, Ulf; Gerhartz, Bernd; Hassiepen, Ulrich; Pierrat, Benoit; Riedl, Ralph; Vinzenz, Daniela; Worpenberg, Susanne; Kroemer, Markus 2006 2006-08-31 PMC N PMC7126176 16905103.0 10.1016/j.str.2006.06.012 9a7hgf71 0.557408 Choudhury_2017, Blank_2017, Yan_J_2007, Smith_2003, Sato_2019 Sato_2019, Deng_2019, Basters_2017
123 Békés_2015 SARS hCoV papain-like protease is a unique Lys48 linkage-specific di-distributive deubiquitinating enzyme Békés, Miklós; Rut, Wioletta; Kasperkiewicz, Paulina; Mulder, Monique P. C.; Ovaa, Huib; Drag, Marcin; Lima, Christopher D.; Huang, Tony T. 2015 2015-05-22 PMC N PMC4447217 25764917.0 10.1042/bj20141170 01rpxu69 0.556520 Meyerson_2017, Ban_J_2018, Pong_2011, Choudhury_2017, Greene_2012 Mielech_2014, Yu_L_2017
124 Lei_J_2014 Crystal structure of the papain-like protease of MERS coronavirus reveals unusual, potentially druggable active-site features Lei, Jian; Mesters, Jeroen R.; Drosten, Christian; Anemüller, Stefan; Ma, Qingjun; Hilgenfeld, Rolf 2014 2014-09-30 PMC N PMC7113875 24992731.0 10.1016/j.antiviral.2014.06.011 xtb68nk3 0.554146 Pong_2011, Gomis-Rüth_2003, Hao_W_2017, Smith_2003, Ivarsson_2012 Lee_T_2005
125 Chuck_2010 Profiling of Substrate Specificity of SARS-CoV 3CL(pro) Chuck, Chi-Pang; Chong, Lin-Tat; Chen, Chao; Chow, Hak-Fun; Wan, David Chi-Cheong; Wong, Kam-Bo 2010 2010-10-06 COMM-USE N PMC2950840 20949131.0 10.1371/journal.pone.0013197 eh8k8y4c 0.552464 Morikawa_1992, Yang_2012, UNKNOWN_1987, Wu_G_2005, Smith_2003 Kuo_C_2009
126 Cheng_2005 Expression, purification, and characterization of SARS coronavirus RNA polymerase Cheng, Ao; Zhang, Wei; Xie, Youhua; Jiang, Weihong; Arnold, Eddy; Sarafianos, Stefan G.; Ding, Jianping 2005 2005-05-10 PMC N PMC7111802 15840516.0 10.1016/j.virol.2005.02.017 qt130ix6 0.552169 Pong_2011, Stork_2011, Meyerson_2017, Kang_2009 Wang_2009, van_der_Linden_2014, Du_L_2007
127 Shi_J_2011 Dynamically-Driven Inactivation of the Catalytic Machinery of the SARS 3C-Like Protease by the N214A Mutation on the Extra Domain Shi, Jiahai; Han, Nanyu; Lim, Liangzhong; Lua, Shixiong; Sivaraman, J.; Wang, Lushan; Mu, Yuguang; Song, Jianxing 2011 2011-02-24 COMM-USE N PMC3044768 21390281.0 10.1371/journal.pcbi.1001084 2beyphz7 0.550959 Smith_2003, Ivarsson_2012, UNKNOWN_1987, Volmer_2010, Chan_2016 Someya_2008, Piñón_1997, Kanitz_2019, Cheng_2010
128 Ho_B_2015 Critical Assessment of the Important Residues Involved in the Dimerization and Catalysis of MERS Coronavirus Main Protease Ho, Bo-Lin; Cheng, Shu-Chun; Shi, Lin; Wang, Ting-Yun; Ho, Kuan-I; Chou, Chi-Yuan 2015 2015-12-14 COMM-USE N PMC4682845 26658006.0 10.1371/journal.pone.0144865 ipi81ce3 0.549658 Smith_2003, Hao_W_2017, Pong_2011, UNKNOWN_1987, Gorbalenya_1988 Guillén_2009, Chen_2017, Lin_M_2014
129 Dzimianski_2019 Probing the impact of nairovirus genomic diversity on viral ovarian tumor domain protease (vOTU) structure and deubiquitinase activity Dzimianski, John V.; Beldon, Brianna S.; Daczkowski, Courtney M.; Goodwin, Octavia Y.; Scholte, Florine E. M.; Bergeron, Éric; Pegan, Scott D. 2019 2019-01-10 COMM-USE N PMC6343935 30629698.0 10.1371/journal.ppat.1007515 810r5q03 0.546656 Choudhury_2017, Berkhout_2006, Trobaugh_2017, Haasnoot_2010, Taschuk_2020 Deng_2019, van_der_Linden_2014, Yu_L_2017
130 Nicholson_2008 Characterization of ubiquitin and ubiquitin-like-protein isopeptidase activities Nicholson, Benjamin; Leach, Craig A.; Goldenberg, Seth J.; Francis, Dana M.; Kodrasov, Matthew P.; Tian, Xufan; Shanks, John; Sterner, David E.; Bernal, Alejandro; Mattern, Michael R.; Wilkinson, Keith D.; Butt, Tauseef R. 2008 2008-06-01 PMC N PMC2386736 18424514.0 10.1110/ps.083450408 vi1fgbug 0.546548 Choudhury_2017, Greene_2012, Ban_J_2018, Blank_2017, Meyerson_2017 Yu_L_2017, Catic_2007, Mielech_2014
131 Shi_J_2006 The catalysis of the SARS 3C‐like protease is under extensive regulation by its extra domain Shi, Jiahai; Song, Jianxing 2006 2006-02-08 PMC N PMC7164011 16478476.0 10.1111/j.1742-4658.2006.05130.x w00rcvd8 0.545231 Smith_2003, Ivarsson_2012, UNKNOWN_1987, Volmer_2010, Chang_2000
132 Papadopoulos_2001 Analysis of the thyrotropin‐releasing hormone‐degrading ectoenzyme by site‐directed mutagenesis of cysteine residues: Cys68 is involved in disulfide‐linked dimerization Papadopoulos, Theofilos; Heuer, Heike; Bauer, Karl 2001 2001-12-25 PMC N PMC7163949 10785382.0 10.1046/j.1432-1327.2000.01277.x thjecxg7 0.545157 Smith_2003, UNKNOWN_1987, Ivarsson_2012, Yang_2012, Chang_2000
133 Noble_2014 Crystal structure of dengue virus methyltransferase without S-adenosyl-L-methionine Noble, Christian G.; Li, Shi-Hua; Dong, Hongping; Chew, Sock Hui; Shi, Pei-Yong 2014 2014-11-30 PMC N PMC7113791 25241250.0 10.1016/j.antiviral.2014.09.003 oxohdfpu 0.545131 Pong_2011, Stork_2011, Ivarsson_2012, Gomis-Rüth_2003, Gorbalenya_1988 Deng_2019, Milani_2009, Someya_2008
134 Yang_2009 Expression, crystallization and preliminary X-ray diffraction analysis of the N-terminal domain of nsp2 from avian infectious bronchitis virus Yang, Anqi; Wei, Lei; Zhao, Weiran; Xu, Yuanyuan; Rao, Zihe 2009 2009-07-25 PMC N PMC2720334 19652340.0 10.1107/s1744309109024749 sxxzak42 0.541335 Armesto_2007, Keep_2014, Bickerton_2017, Keep_2015, Gorbalenya_1988 Yu_K_2012, Ma_Y_2010, Wei_L_2008
135 Chen_2015 Cleavage of Dicer Protein by I7 Protease during Vaccinia Virus Infection Chen, Jhih-Si; Li, Hui-Chun; Lin, Shu-I; Yang, Chee-Hing; Chien, Wan-Yu; Syu, Ciao-Ling; Lo, Shih-Yen 2015 2015-03-27 COMM-USE N PMC4376780 25815818.0 10.1371/journal.pone.0120390 6c6cw80p 0.540378 Meyerson_2017, Ban_J_2018, Stork_2011, Masaki_2015 van_der_Linden_2014
136 Mielech_2014 Nidovirus papain-like proteases: Multifunctional enzymes with protease, deubiquitinating and deISGylating activities Mielech, Anna M.; Chen, Yafang; Mesecar, Andrew D.; Baker, Susan C. 2014 2014-12-19 None N PMC4125544 24512893.0 10.1016/j.virusres.2014.01.025 xocmve3x 0.539701 Meyerson_2017, Ban_J_2018, Stork_2011, Rice_1992, Yasuda-Inoue_2013 Yu_L_2017, Deng_2019
137 Bütepage_2018 Nucleolar-nucleoplasmic shuttling of TARG1 and its control by DNA damage-induced poly-ADP-ribosylation and by nucleolar transcription Bütepage, Mareike; Preisinger, Christian; von Kriegsheim, Alexander; Scheufen, Anja; Lausberg, Eva; Li, Jinyu; Kappes, Ferdinand; Feederle, Regina; Ernst, Sabrina; Eckei, Laura; Krieg, Sarah; Müller-Newen, Gerhard; Rossetti, Giulia; Feijs, Karla L. H.; Verheugd, Patricia; Lüscher, Bernhard 2018 2018-04-30 None N PMC5928194 29712969.0 10.1038/s41598-018-25137-w 8mtvx3h9 0.539571 Blank_2017, Ivanova_2015, Stork_2011, Yasuda-Inoue_2013, Greene_2012 Munnur_2019, Jankevicius_2013, Grunewald_2019
138 Du_Q_2005 Molecular modeling and chemical modification for finding peptide inhibitor against severe acute respiratory syndrome coronavirus main proteinase Du, Qishi; Wang, Shuqing; Wei, Dongqing; Sirois, Suzanne; Chou, Kuo-Chen 2005 2005-02-15 PMC N PMC7094278 15691506.0 10.1016/j.ab.2004.10.003 vtmwv8zl 0.537691 Smith_2003, UNKNOWN_1987, Yang_2012, Yang_2010, Wang_2014 Du_Q_2004, Wei_P_2006, Taranto_2008, Zhu_L_2011
139 Lei_J_2016 Structural and mutational analysis of the interaction between the Middle-East respiratory syndrome coronavirus (MERS-CoV) papain-like protease and human ubiquitin Lei, Jian; Hilgenfeld, Rolf 2016 2016-05-30 PMC N PMC7090527 27245450.0 10.1007/s12250-016-3742-4 4cgrjnjo 0.537136 Choudhury_2017, Ivarsson_2012, Sato_2019, Smith_2003, Pong_2011
140 Sun_D_2019 Biochemical characterization of recombinant Avihepatovirus 3C protease and its localization Sun, Di; Wang, Mingshu; Wen, Xingjian; Mao, Sai; Cheng, Anchun; Jia, Renyong; Yang, Qiao; Wu, Ying; Zhu, Dekang; Chen, Shun; Liu, Mafeng; Zhao, Xinxin; Zhang, Shaqiu; Chen, Xiaoyue; Liu, Yunya; Yu, Yanling; Zhang, Ling 2019 2019-04-29 COMM-USE N PMC6489322 31036013.0 10.1186/s12985-019-1155-3 rlzh9u6v 0.535503 Yang_2010, Volmer_2010, Kang_2009, Stork_2011, Gendron_2010 van_der_Linden_2014, Sun_D_2016, Pastorino_2008
141 Ye_G_2020 Structural Basis for Inhibiting Porcine Epidemic Diarrhea Virus Replication with the 3C-Like Protease Inhibitor GC376 Ye, Gang; Wang, Xiaowei; Tong, Xiaohan; Shi, Yuejun; Fu, Zhen F.; Peng, Guiqing 2020 2020-02-21 COMM-USE N PMC7077318 32098094.0 10.3390/v12020240 7hty6li9 0.534736 Lu_P_2016, Ryu_W_2017, Tallmadge_2008, Yasui_2016, Rice_1992 Sun_D_2016, van_der_Linden_2014, Jiang_2017, Yao_C_2018
142 Kuo_C_2009 Engineering a novel endopeptidase based on SARS 3CL(pro) Kuo, Chih-Jung; Shih, Yan-Ping; Kan, Daphne; Liang, Po-Huang 2009 2009-04-25 COMM-USE N PMC7081961 20041855.0 10.2144/000113303 675lfem3 0.533180 Morikawa_1992, Wurch_1991, Luytjes_1988, Yang_2010, Vennema_1991 Piñón_1997, van_der_Linden_2014
143 Zhang_2011 Interferon-Stimulated Gene 15 and the Protein ISGylation System Zhang, Dongxian; Zhang, Dong-Er 2011 2011-01-01 PMC N PMC3021351 21190487.0 10.1089/jir.2010.0110 prtg9s5m 0.532571 Choudhury_2017, Martín-Vicente_2017, Ban_J_2018, Lindner_2007, El_Motiam_2019 Morales_2013, Jeon_2010
144 Tan_Y_2014 Crystallization and preliminary crystallographic study of Porcine epidemic diarrhea virus main protease in complex with an inhibitor Tan, Yusheng; Wang, Fenghua; Chen, Xia; Wang, Jinshan; Zhao, Qi; Li, Shuang; Wang, Zefang; Fu, Sheng; Chen, Cheng; Yang, Haitao 2014 2014-11-14 PMC N PMC4259222 25484208.0 10.1107/s2053230x14021876 0cyi5262 0.531773 Ryu_W_2017, Tallmadge_2008, Lu_P_2016, Rice_1992, Yasui_2016 Wang_2014, Yang_2009, Ma_Y_2010
145 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 0.531124 Smith_2003, Sato_2019, Ivarsson_2012, Blank_2017, Choudhury_2017 Sato_2019, Li_H_2016, Myllykoski_2017
146 Kuo_C_2004 Characterization of SARS main protease and inhibitor assay using a fluorogenic substrate Kuo, Chih-Jung; Chi, Ya-Hui; Hsu, John T.-A; Liang, Po-Huang 2004 2004-06-11 PMC N PMC7134607 15147951.0 10.1016/j.bbrc.2004.04.098 n0fa076h 0.529348 Yang_2010, Vaughan_2012, Pong_2011, Stork_2011, Kang_2009 van_der_Linden_2014, Zhu_L_2011, Wei_P_2006, Kao_R_2004
147 Ng_L_1998 Identification of a 24-kDa Polypeptide Processed from the Coronavirus Infectious Bronchitis Virus 1a Polyprotein by the 3C-like Proteinase and Determination of Its Cleavage Sites Ng, Lisa F.P.; Liu, D.X. 1998 1998-04-10 PMC N PMC7131520 9568037.0 10.1006/viro.1998.9058 9727rypj 0.528471 Luytjes_1988, Morikawa_1992, Pong_2011, Vennema_1991, Wurch_1991
148 Lombardi_2013 A Compact Viral Processing Proteinase/Ubiquitin Hydrolase from the OTU Family Lombardi, Charlotte; Ayach, Maya; Beaurepaire, Lionel; Chenon, Mélanie; Andreani, Jessica; Guerois, Raphaël; Jupin, Isabelle; Bressanelli, Stéphane 2013 2013-08-15 None N PMC3744425 23966860.0 10.1371/journal.ppat.1003560 49u2onq0 0.528055 Pong_2011, Stork_2011, Kang_2009, Gorbalenya_1988, Meyerson_2017 Rozanov_1995, Piñón_1997
149 ZHOU_2008 A cysteine-rich metal-binding domain from rubella virus non-structural protein is essential for viral protease activity and virus replication ZHOU, Yubin; TZENG, Wen-Pin; YE, Yiming; HUANG, Yun; LI, Shunyi; CHEN, Yanyi; FREY, Teryl K.; YANG, Jenny J. 2008 2008-12-23 PMC N PMC2908387 18795894.0 10.1042/bj20081468 z7z7sf7b 0.527098 Pong_2011, Kang_2009, Yang_2010, Volmer_2010, Gorbalenya_1988
150 Zhang_2010 Identification of aromatic amino acid residues in conserved region VI of the large polymerase of vesicular stomatitis virus is essential for both guanine-N-7 and ribose 2'-O methyltransferases Zhang, Xiaodong; Wei, Yongwei; Ma, Yuanmei; Hu, Songhua; Li, Jianrong 2010 2010-12-20 PMC N PMC7111938 20961592.0 10.1016/j.virol.2010.09.017 592oxd6m 0.524282 Blank_2017, Gorbalenya_1988, Kang_2009, Stork_2011, Freistadt_2007 Rozanov_1995
151 Gui_W_2019 Activity-Based Ubiquitin Probes for Investigation of Deubiquitinases Gui, Weijun; Paudel, Prajwal; Zhuang, Zhihao 2019 2019-12-31 PMC N PMC7157470 10.1016/b978-0-12-409547-2.14672-4 yrviijef 0.523291 Blank_2017, Choudhury_2017, Yan_J_2007, Greene_2012 Sato_2019, Flierman_2016, van_der_Heden_van_Noort_2018
152 van_Tilburg_2016 Synthetic and semi-synthetic strategies to study ubiquitin signaling van Tilburg, Gabriëlle BA; Elhebieshy, Angela F; Ovaa, Huib 2016 2016-06-30 PMC N PMC7125694 27315041.0 10.1016/j.sbi.2016.05.022 u62z045m 0.523291 Choudhury_2017, Cox_E_2015, Lindner_2007, Ivarsson_2012 Wimmer_2015, Flierman_2016, Sato_2019
153 Pattyn_2008 HyperISGylation of Old World Monkey ISG15 in Human Cells Pattyn, Els; Verhee, Annick; Uyttendaele, Isabel; Piessevaux, Julie; Timmerman, Evy; Gevaert, Kris; Vandekerckhove, Joël; Peelman, Frank; Tavernier, Jan 2008 2008-06-18 COMM-USE N PMC2423471 18560560.0 10.1371/journal.pone.0002427 1eksm537 0.523200 Choudhury_2017, Ban_J_2018, Yan_J_2007, Berkhout_2006, Ivarsson_2012 Deng_2019, Leu_S_2010, Kim_Y_2016
154 Clasman_2020 Decoupling deISGylating and deubiquitinating activities of the MERS virus papain-like protease Clasman, Jozlyn R.; Everett, Renata K.; Srinivasan, Karthik; Mesecar, Andrew D. 2020 2020-02-29 PMC N PMC7114298 31765674.0 10.1016/j.antiviral.2019.104661 vj4ivvng 0.522900 Meyerson_2017, Ban_J_2018, Stork_2011, Kang_2009, Pong_2011 Yu_L_2017, Deng_2019, Mielech_2014, Mielech_2014
155 Lee_H_2015 Inhibitor Recognition Specificity of MERS-CoV Papain-like Protease May Differ from That of SARS-CoV Lee, Hyun; Lei, Hao; Santarsiero, Bernard\nD.; Gatuz, Joseph\nL.; Cao, Shuyi; Rice, Amy J.; Patel, Kavankumar; Szypulinski, Michael Z.; Ojeda, Isabel; Ghosh, Arun K.; Johnson, Michael E. 2015 2015-03-06 None N PMC4845099 25746232.0 10.1021/cb500917m wd5bzsol 0.522047 Pong_2011, Meyerson_2017, Ban_J_2018, Li_C_2017, Kang_2009 Zhu_L_2011, Niemeyer_2018, Lee_H_2013
156 Chen_2011 Identification and expressional analysis of two cathepsins from half-smooth tongue sole (Cynoglossus semilaevis) Chen, Ling; Zhang, Min; Sun, Li 2011 2011-12-31 None N PMC7128119 21939771.0 10.1016/j.fsi.2011.09.012 wllruqt6 0.521561 Yang_2010, UNKNOWN_1987, Yang_2012, Volmer_2010, Luytjes_1988 Yeh_H_2009, Xu_S_2020
157 Punekar_2012 Crystal structure of RlmM, the 2′O-ribose methyltransferase for C2498 of Escherichia coli 23S rRNA Punekar, Avinash S.; Shepherd, Tyson R.; Liljeruhm, Josefine; Forster, Anthony C.; Selmer, Maria 2012 2012-08-24 NONCOMM N PMC3488215 22923526.0 10.1093/nar/gks727 plg5qx9m 0.521070 Hou_L_2014, Gorbalenya_1988, Sato_2019, Morikawa_1992, Krause_1987 Someya_2008, Kanitz_2019, Myllykoski_2017, Scrima_2004
158 Huitema_2008 Heteroaromatic ester inhibitors of hepatitis A virus 3C proteinase: Evaluation of mode of action Huitema, Carly; Zhang, Jianmin; Yin, Jiang; James, Michael N.G.; Vederas, John C.; Eltis, Lindsay D. 2008 2008-05-15 PMC N PMC7125897 18407505.0 10.1016/j.bmc.2008.03.059 r1mkkg54 0.520912 Pong_2011, Kang_2009, Stork_2011, Yang_2010, Naito_2007 Grazioso_2012, Kuo_C_2008, van_der_Linden_2014, Becker_2016
159 Du_Q_2004 Polyprotein cleavage mechanism of SARS CoV Mpro and chemical modification of the octapeptide Du, Qi-Shi; Wang, Shu-Qing; Zhu, Yu; Wei, Dong-Qing; Guo, Hong; Sirois, Suzanne; Chou, Kuo-Chen 2004 2004-11-30 PMC N PMC7115412 15501516.0 10.1016/j.peptides.2004.06.018 4jrro0gd 0.519705 Smith_2003, Deng_2006, Wang_2014, UNKNOWN_1986, Langosch_2011 Wei_P_2006, Cheng_2010, Kuo_C_2009
160 Grunewald_2019 The coronavirus macrodomain is required to prevent PARP-mediated inhibition of virus replication and enhancement of IFN expression Grunewald, Matthew E.; Chen, Yating; Kuny, Chad; Maejima, Takashi; Lease, Robert; Ferraris, Dana; Aikawa, Masanori; Sullivan, Christopher S.; Perlman, Stanley; Fehr, Anthony R. 2019 2019-05-16 COMM-USE N PMC6521996 31095648.0 10.1371/journal.ppat.1007756 2zvqopyu 0.517076 Yasuda-Inoue_2013, Ban_J_2018, Meyerson_2017, Blank_2017, Stork_2011 Krieg_2020
161 Bailey-Elkin_2014 Viral OTU Deubiquitinases: A Structural and Functional Comparison Bailey-Elkin, Ben A.; van Kasteren, Puck B.; Snijder, Eric J.; Kikkert, Marjolein; Mark, Brian L. 2014 2014-03-27 COMM-USE N PMC3968130 24676359.0 10.1371/journal.ppat.1003894 g7mjit8i 0.516922 Taschuk_2020, Haasnoot_2010, Odom_2009, Dolja_2006 Mielech_2014, Yu_L_2017, Deng_2019
162 Li_Y_2011 Expression, crystallization and preliminary crystallographic study of the C-terminal half of nsp2 from SARS coronavirus Li, Yuanyuan; Ren, Zhilin; Bao, Zehua; Ming, Zhenhua; Li, Xuemei 2011 2011-06-30 PMC N PMC3144797 21795795.0 10.1107/s1744309111017829 myr48meo 0.516657 Hewson_2007, Shen_2005, Crowe_2014, Narayanan_2003, Pong_2011 Yang_2009, Yu_K_2012, Huo_T_2015, Ricagno_2006
163 Feijs_2020 The Controversial Roles of ADP-Ribosyl Hydrolases MACROD1, MACROD2 and TARG1 in Carcinogenesis Feijs, Karla L.H.; Cooper, Christopher D.O.; Žaja, Roko 2020 2020-03-05 COMM-USE N PMC7139919 32151005.0 10.3390/cancers12030604 gigwlov3 0.516525 Haasnoot_2010, Blank_2017, Rytkönen_2007, Boggio_2006, Berkhout_2006 Bütepage_2015, Jankevicius_2013, Daniels_2015, Appel_2016
164 Zhou_2019 Characterizing the PRRSV nsp2 Deubiquitinase Reveals Dispensability of Cis-Activity for Replication and a Link of nsp2 to Inflammation Induction Zhou, Shaochuan; Ge, Xinna; Kong, Can; Liu, Teng; Liu, Aijing; Gao, Peng; Song, Jiangwei; Zhou, Lei; Guo, Xin; Han, Jun; Yang, Hanchun 2019 2019-09-26 COMM-USE N PMC6832237 31561412.0 10.3390/v11100896 lg6gvgwt 0.515638 Ban_J_2018, Meyerson_2017, Kumar_2016, Kang_2009, Greene_2012 Deng_2019, Yu_L_2017, Mielech_2014
165 Rausalu_2016 Chikungunya virus infectivity, RNA replication and non-structural polyprotein processing depend on the nsP2 protease’s active site cysteine residue Rausalu, Kai; Utt, Age; Quirin, Tania; Varghese, Finny S.; Žusinaite, Eva; Das, Pratyush Kumar; Ahola, Tero; Merits, Andres 2016 2016-11-15 COMM-USE N PMC5109220 27845418.0 10.1038/srep37124 q0kyafqr 0.515291 Tallmadge_2008, Ryu_W_2017, Pong_2011, Rice_1992 Karpe_2011, Brockway_2005
166 Kim_J_2020 Cooperative enzymatic control of N-acyl amino acids by PM20D1 and FAAH Kim, Joon T; Terrell, Stephanie M; Li, Veronica L; Wei, Wei; Fischer, Curt R; Long, Jonathan Z 2020 2020-04-09 COMM-USE N PMC7145423 32271712.0 10.7554/elife.55211 79lm053o 0.514752 Schmidt_1982, Ivarsson_2012, Schlesinger_1983, Cosson_2013 Grazioso_2012, Buller_2012
167 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 0.513659 Pong_2011, Kang_2009, Meyerson_2017, Volmer_2010, Stork_2011 Hu_X_2016
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169 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 0.511305 Volmer_2010, UNKNOWN_1987, Yang_2010, Pong_2011, Kang_2009 Wang_2009, Lin_C_2004, van_der_Linden_2014, Zhu_L_2011
170 Zhang_2004 Exploring the binding mechanism of the main proteinase in SARS-associated coronavirus and its implication to anti-SARS drug design Zhang, Xue Wu; Yap, Yee Leng 2004 2004-05-01 PMC N PMC7125554 15080921.0 10.1016/j.bmc.2004.02.015 occ03hp0 0.511157 Davaro_2013, Garcia–Moliner_2013, Lu_P_2016, Tallmadge_2008, Franks_2013 Du_L_2007, Niemeyer_2018, Zhu_L_2011
171 Fan_K_2005 The substrate specificity of SARS coronavirus 3C-like proteinase Fan, Keqiang; Ma, Liang; Han, Xiaofeng; Liang, Huanhuan; Wei, Ping; Liu, Ying; Lai, Luhua 2005 2005-04-15 PMC N PMC7092912 15752746.0 10.1016/j.bbrc.2005.02.061 02o93wlh 0.510701 Naito_2007, Pong_2011, Gorbalenya_1988, Morikawa_1992, Callison_1999 Wei_P_2006, van_der_Linden_2014, Zhu_L_2011
172 Srivastava_2008 Proteolytic processing of a precursor protein for a growth-promoting peptide by a subtilisin serine protease in Arabidopsis Srivastava, Renu; Liu, Jian-Xiang; Howell, Stephen H 2008 2008-08-01 COMM-USE N PMC2667306 18643977.0 10.1111/j.1365-313x.2008.03598.x vg57cnqw 0.509363 Chen_2015, UNKNOWN_1987, Yang_2010, Blank_2017, Esposito_2005 Denison_1992
173 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 0.507943 Smith_2003, Cleary_2015, Someya_2008, Ho_S_2009 Buller_2012, Cleary_2015, Someya_2008, Grazioso_2012
174 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 0.507313 Ivarsson_2012, Smith_2003, Schlieker_2007, UNKNOWN_1987, Choudhury_2017 Wei_P_2006, Zhu_L_2011, Lee_T_2005, Grazioso_2012
175 Xia_B_2011 Activation and maturation of SARS-CoV main protease Xia, Bin; Kang, Xue 2011 2011-04-01 PMC N PMC4875205 21533772.0 10.1007/s13238-011-1034-1 0oh701o3 0.507313 Volmer_2010, Meyerson_2017, Kang_2009, Pong_2011, Xu_Z_2012 Du_L_2007, Niemeyer_2018, Simmons_2013, Haga_2010
176 Fehr_2020 The impact of PARPs and ADP-ribosylation on inflammation and host–pathogen interactions Fehr, Anthony R.; Singh, Sasha A.; Kerr, Catherine M.; Mukai, Shin; Higashi, Hideyuki; Aikawa, Masanori 2020 2020-02-06 None N PMC7050484 32029454.0 10.1101/gad.334425.119 qsm96t72 0.506771 Taschuk_2020, Blank_2017, Shi_J_2012, Rytkönen_2007, Bailey-Elkin_2017 Feijs_2020, Bütepage_2015, Deng_2019
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179 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 0.501092 Smith_2003, Ivarsson_2012, Tosoni_2015, Chan_2016, Gendron_2010
180 Curry_2007 Foot-and-mouth disease virus 3C protease: Recent structural and functional insights into an antiviral target Curry, Stephen; Roqué-Rosell, Núria; Zunszain, Patricia A.; Leatherbarrow, Robin J. 2007 2007-12-31 PMC N 16979372.0 10.1016/j.biocel.2006.07.006 urw64az2 0.501045 Rice_1992, den_Boon_2010, Trobaugh_2017, Tallmadge_2008 Steinberger_2014, Sun_D_2016, Ao_D_2015
181 Ma_Y_2010 Crystallization and preliminary X-ray diffraction studies of infectious bronchitis virus nonstructural protein 9 Ma, Yanlin; Chen, Cheng; Wei, Lei; Yang, Qingzhu; Liao, Ming; Li, Xuemei 2010 2010-05-29 PMC N PMC2882775 20516605.0 10.1107/s174430911001417x jst6h157 0.500480 Hewson_2007, Crowe_2014, Gorbalenya_1988, Li_C_2013, Ryu_W_2017 Yang_2009, Yu_K_2012, Wei_L_2008, Ricagno_2006
182 Li_C_2016 Conformational Flexibility of a Short Loop near the Active Site of the SARS-3CLpro is Essential to Maintain Catalytic Activity Li, Chunmei; Teng, Xin; Qi, Yifei; Tang, Bo; Shi, Hailing; Ma, Xiaomin; Lai, Luhua 2016 2016-02-16 COMM-USE N PMC4754693 26879383.0 10.1038/srep20918 n69iewmx 0.500480 Smith_2003, Gomis-Rüth_2003, Ivarsson_2012, UNKNOWN_1987 Someya_2008, Kanitz_2019, Wei_P_2006, Hu_T_2009
183 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 0.500414 Ivarsson_2012, UNKNOWN_1987, Smith_2003, Pong_2011, Sato_2019 Piñón_1997, Tsai_2010, Rozanov_1995
184 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 0.500387 Ivarsson_2012, Smith_2003, UNKNOWN_1987, Krause_1987, Gorbalenya_1988 Myllykoski_2017, Kanitz_2019, Buller_2012, Brandmann_2015
185 Martin_2018 The methyltransferase domain of the Sudan ebolavirus L protein specifically targets internal adenosines of RNA substrates, in addition to the cap structure Martin, Baptiste; Coutard, Bruno; Guez, Théo; Paesen, Guido C; Canard, Bruno; Debart, Françoise; Vasseur, Jean-Jacques; Grimes, Jonathan M; Decroly, Etienne 2018 2018-09-06 NONCOMM N PMC6125687 30192980.0 10.1093/nar/gky637 243u68j8 0.500358 Stork_2011, Yasuda-Inoue_2013, Pong_2011, Meyerson_2017, Blank_2017 Ferron_2019, Gopinath_2015
186 Chou_2008 Thiopurine analogues inhibit papain-like protease of severe acute respiratory syndrome coronavirus Chou, Chi-Yuan; Chien, Chia-Hui; Han, Yu-San; Prebanda, Mojca Trstenjak; Hsieh, Hsing-Pang; Turk, Boris; Chang, Gu-Gang; Chen, Xin 2008 2008-04-15 PMC N PMC7092826 18313035.0 10.1016/j.bcp.2008.01.005 5szqfufh 0.496323 Naito_2007, Berkhout_2006, Li_C_2017, Klein_2011, Haasnoot_2010 Lee_H_2013, Cheng_2015, Zhu_L_2011
187 Xu_A_2010 Characterization of the biochemical properties and identification of amino acids forming the catalytic center of 3C-like proteinase of porcine reproductive and respiratory syndrome virus Xu, Ao-Tian; Zhou, Yan-Jun; Li, Guo-Xin; Yu, Hai; Yan, Li-Ping; Tong, Guang-Zhi 2010 2010-09-24 PMC N PMC7088359 20865444.0 10.1007/s10529-010-0370-1 l3si3jpn 0.496134 Yang_2010, Abou-Hamdan_2018, Largo_2016, David_2013, Choudhury_2011 Someya_2008, Tian_2009
188 Wang_2015 Cathepsin L Mediates the Degradation of Novel APP C-Terminal Fragments Wang, Haizhi; Sang, Nianli; Zhang, Can; Raghupathi, Ramesh; Tanzi, Rudolph E.; Saunders, Aleister 2015 2015-04-28 PMC N PMC4521409 25910068.0 10.1021/acs.biochem.5b00329 esns9xk6 0.496067 Greene_2012, Blank_2017, Pridgeon_2008, Chen_2015 Basak_2009, Benharouga_2001, Edwards_2008
189 Li_J_2006 Preliminary crystallographic analysis of avian infectious bronchitis virus main protease Li, Jun; Shen, Wei; Liao, Ming; Bartlam, Mark 2006 2006-12-16 PMC N PMC2330114 17183167.0 10.1107/s1744309106052341 40pa5g89 0.496067 Ryu_W_2017, Lu_P_2016, Armesto_2007, Keep_2014, Volmer_2010 Wang_2014, Ren_X_2008, Ma_Y_2010
190 Appel_2016 Structure of the sirtuin‐linked macrodomain SAV0325 from Staphylococcus aureus Appel, C. Denise; Feld, Geoffrey K.; Wallace, Bret D.; Williams, R. Scott 2016 2016-07-07 PMC N PMC5338245 27345688.0 10.1002/pro.2974 tzxnlw0j 0.495925 Ivarsson_2012, Smith_2003, Blank_2017, Sato_2019, Choudhury_2017 Deng_2019, Buller_2012, Michalska_2018, Jankevicius_2013
191 Swatek_2018 Irreversible inactivation of ISG15 by a viral leader protease enables alternative infection detection strategies Swatek, Kirby N.; Aumayr, Martina; Pruneda, Jonathan N.; Visser, Linda J.; Berryman, Stephen; Kueck, Anja F.; Geurink, Paul P.; Ovaa, Huib; van Kuppeveld, Frank J. M.; Tuthill, Tobias J.; Skern, Tim; Komander, David 2018 2018-03-06 None N PMC5877979 29463763.0 10.1073/pnas.1710617115 3s86w4iw 0.495773 Meyerson_2017, Ban_J_2018, Pong_2011, Greene_2012, Stork_2011 van_der_Linden_2014, Deng_2019, Mielech_2014, Yu_L_2017
192 Jin_X_2013 Characterization of the guanine-N7 methyltransferase activity of coronavirus nsp14 on nucleotide GTP Jin, Xu; Chen, Yu; Sun, Ying; Zeng, Cong; Wang, Yi; Tao, Jiali; Wu, Andong; Yu, Xiao; Zhang, Zhou; Tian, Jie; Guo, Deyin 2013 2013-09-30 PMC N PMC7114466 23702198.0 10.1016/j.virusres.2013.05.001 p628h7c8 0.495522 Yasuda-Inoue_2013, Stork_2011, Pong_2011, Meyerson_2017, Li_C_2013
193 Hodul_2017 Function of the Deubiquitinating Enzyme USP46 in the Nervous System and Its Regulation by WD40-Repeat Proteins Hodul, Molly; Dahlberg, Caroline L.; Juo, Peter 2017 2017-12-14 COMM-USE N PMC5735123 29302259.0 10.3389/fnsyn.2017.00016 oqte7dx2 0.495522 Choudhury_2017, Blank_2017, Lindner_2007, Taschuk_2020 Deng_2019, Turcu_2009, Sato_2019
194 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 0.494800 Yang_2010, Smith_2003, Schlieker_2007, Pong_2011 Yoshizawa_2020, Konno_2013, Niu_C_2008, Thanigaimalai_2013
195 Stewart_2015 Structure-based identification of functional residues in the nucleoside-2′-O-methylase domain of Bluetongue virus VP4 capping enzyme Stewart, Meredith E.; Roy, Polly 2015 2015-02-24 None N PMC4359970 25834778.0 10.1016/j.fob.2015.02.001 vzel6r43 0.494263 Stork_2011, Pong_2011, Kang_2009, Gorbalenya_1988, Volmer_2010 Someya_2008, Punekar_2012
196 Denesyuk_2020 NBCZone: Universal three-dimensional construction of eleven amino acids near the catalytic nucleophile and base in the superfamily of (chymo)trypsin-like serine fold proteases Denesyuk, Alexander I.; Johnson, Mark S.; Salo-Ahen, Outi M.H.; Uversky, Vladimir N.; Denessiouk, Konstantin 2020 2020-06-15 PMC N PMC7124590 32151723.0 10.1016/j.ijbiomac.2020.03.025 swrfpnut 0.492440 Gorbalenya_1988, Yang_2012, Wu_G_2005, Yang_2010, Luytjes_1988 Someya_2008, Rozanov_1995, Kanitz_2019
197 Michalska_2018 Functional plasticity of antibacterial EndoU toxins Michalska, Karolina; Nhan, Dinh Quan; Willett, Julia L. E.; Stols, Lucy M.; Eschenfeldt, William H.; Jones, Allison M.; Nguyen, Josephine Y.; Koskiniemi, Sanna; Low, David A.; Goulding, Celia W.; Joachimiak, Andrzej; Hayes, Christopher S. 2018 2018-08-01 PMC N PMC6173971 29923643.0 10.1111/mmi.14007 zbm8uy0z 0.491644 Gorbalenya_1988, Ivarsson_2012, Hou_L_2014, Volmer_2010, UNKNOWN_1987 van_der_Linden_2014, Singleton_2018, Deng_2019
198 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 0.490864 Ivarsson_2012, Gorbalenya_1988, Smith_2003, Chan_2016, Sundaramoorthy_2018 Buller_2012, Kanitz_2019
199 John_2016 X-Ray Structure and Inhibition of 3C-like Protease from Porcine Epidemic Diarrhea Virus St. John, Sarah E.; Anson, Brandon J.; Mesecar, Andrew D. 2016 2016-05-13 COMM-USE N PMC4865815 27173881.0 10.1038/srep25961 u4mvk89w 0.489239 Volmer_2010, Callison_1999, Gorbalenya_1988, Luytjes_1988, Auewarakul_2005 Kuo_C_2008, Sun_D_2016
200 Lim_L_2014 Dynamically-Driven Enhancement of the Catalytic Machinery of the SARS 3C-Like Protease by the S284-T285-I286/A Mutations on the Extra Domain Lim, Liangzhong; Shi, Jiahai; Mu, Yuguang; Song, Jianxing 2014 2014-07-18 COMM-USE N PMC4103764 25036652.0 10.1371/journal.pone.0101941 u9zazctj 0.489151 Smith_2003, Ivarsson_2012, UNKNOWN_1987, Chan_2016, Yang_2012 Someya_2008, Shi_J_2011, Kanitz_2019, Buller_2012
201 van_Aken_2006 Expression, purification, and in vitro activity of an arterivirus main proteinase van Aken, Danny; Benckhuijsen, Willemien E.; Drijfhout, Jan W.; Wassenaar, Alfred L.M.; Gorbalenya, Alexander E.; Snijder, Eric J. 2006 2006-09-30 PMC N PMC7114227 16527369.0 10.1016/j.virusres.2006.01.025 y1cm58r6 0.488376 Pong_2011, Yang_2010, Stork_2011, Kang_2009, Tibbles_1999 Eshaghi_2005, Piñón_1997
202 Daczkowski_2017 Structural Insights into the Interaction of Coronavirus Papain-Like Proteases and Interferon-Stimulated Gene Product 15 from Different Species Daczkowski, Courtney M.; Dzimianski, John V.; Clasman, Jozlyn R.; Goodwin, Octavia; Mesecar, Andrew D.; Pegan, Scott D. 2017 2017-06-02 PMC N PMC5634334 28438633.0 10.1016/j.jmb.2017.04.011 xs32un2d 0.488092 Meyerson_2017, Rice_1992, Pong_2011, Ban_J_2018, Trobaugh_2017 Niemeyer_2018
203 Fehr_2018 Viral Macrodomains: Unique Mediators of Viral Replication and Pathogenesis Fehr, Anthony R.; Jankevicius, Gytis; Ahel, Ivan; Perlman, Stanley 2018 2018-07-31 PMC N PMC6003825 29268982.0 10.1016/j.tim.2017.11.011 km0qcmlh 0.487462 Taschuk_2020, Yasuda-Inoue_2013, den_Boon_2010, Klein_2011, Choudhury_2017 Sun_D_2016, Watanabe_2019, Deng_2019, Mielech_2014
204 Tao_H_2006 Template‐assisted rational design of peptide inhibitors of furin using the lysine fragment of the mung bean trypsin inhibitor Tao, Hu; Zhang, Zhen; Shi, Jiahao; Shao, Xiao‐xia; Cui, Dafu; Chi, Cheng‐wu 2006 2006-07-28 PMC N PMC7164071 16934032.0 10.1111/j.1742-4658.2006.05393.x k8nh8pd5 0.486883 Yang_2010, Smith_2003, UNKNOWN_1987, Yang_2012, Wu_G_2005
205 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 0.486421 Smith_2003, Yang_2010, Yang_2012, Blank_2017 Someya_2008, Buller_2012, Myllykoski_2017
206 Durfee_2010 IDENTIFICATION AND VALIDATION OF ISG15 TARGET PROTEINS Durfee, Larissa A.; Huibregtse, Jon M. 2010 2010-01-01 PMC N PMC5912676 21222286.0 10.1007/978-1-4419-6676-6_18 upmnzq0k 0.485986 Choudhury_2017, Ban_J_2018, Martín-Vicente_2017, Haasnoot_2010, Blank_2017 Morales_2013, Jeon_2010, Catic_2007
207 Rozanov_1995 Papain-like proteinase of turnip yellow mosaic virus: a prototype of a new viral proteinase group Rozanov, M. N.; Drugeon, G.; Haenni, A. -L. 1995 1995-01-01 PMC N PMC7086826 7710355.0 10.1007/bf01309862 r7ofnxf1 0.485983 Luytjes_1988, Gorbalenya_1988, Yang_2010, UNKNOWN_1987, Zhou_2011
208 Salomon_2018 Aminobenzosuberone Scaffold as a Modular Chemical Tool for the Inhibition of Therapeutically Relevant M1 Aminopeptidases Salomon, Emmanuel; Schmitt, Marjorie; Marapaka, Anil Kumar; Stamogiannos, Athanasios; Revelant, Germain; Schmitt, Céline; Alavi, Sarah; Florent, Isabelle; Addlagatta, Anthony; Stratikos, Efstratios; Tarnus, Céline; Albrecht, Sébastien 2018 2018-10-11 None N PMC6222927 30314342.0 10.3390/molecules23102607 70ie4jqf 0.484628 Yang_2010, Schlieker_2007, Mönttinen_2019, Ivarsson_2012, Saura_1999 Grazioso_2012, Joshi_2017, Opsenica_2011, Mahalingam_2011
209 Cui_S_2011 Crystal Structure of Human Enterovirus 71 3C Protease Cui, Sheng; Wang, Jing; Fan, Tingting; Qin, Bo; Guo, Li; Lei, Xiaobo; Wang, Jianwei; Wang, Meitian; Jin, Qi 2011 2011-05-06 PMC N PMC7094522 21396941.0 10.1016/j.jmb.2011.03.007 ar1yjoux 0.483774 Pong_2011, Stork_2011, Kang_2009, Meyerson_2017, Rice_1992 Yao_C_2018, Sun_D_2016
210 Saura_1999 An Antiviral Mechanism of Nitric Oxide Inhibition of a Viral Protease Saura, Marta; Zaragoza, Carlos; McMillan, Audrey; Quick, Richard A; Hohenadl, Christine; Lowenstein, John M; Lowenstein, Charles J 1999 1999-01-01 PMC N PMC7129050 10023767.0 10.1016/s1074-7613(00)80003-5 le034mvq 0.483673 Li_C_2017, Meyerson_2017, Viswanathan_2010, Tang_2018 Wei_Z_2009, van_der_Linden_2014, Åkerström_2009
211 Taylor_2020 Strategies to Target Specific Components of the Ubiquitin Conjugation/Deconjugation Machinery Taylor, Neil C.; McGouran, Joanna F. 2020 2020-01-10 COMM-USE N PMC6966607 31998698.0 10.3389/fchem.2019.00914 5o79opm4 0.483297 Choudhury_2017, Cox_E_2015, Lindner_2007, Blank_2017 Wimmer_2015, van_der_Heden_van_Noort_2018, Calistri_2014
212 Turcu_2009 Regulation and Cellular Roles of Ubiquitin-specific Deubiquitinating Enzymes Turcu, Francisca E. Reyes; Ventii, Karen H.; Wilkinson, Keith D. 2009 2009-06-01 PMC N PMC2734102 19489724.0 10.1146/annurev.biochem.78.082307.091526 l9urey1l 0.483082 Choudhury_2017, Blank_2017, Greene_2012, Pridgeon_2008 Wimmer_2015, Deng_2019, Sato_2019
213 Sandholt_2019 Biochemical characterization of a native group III trypsin ZT from Atlantic cod (Gadus morhua) Sandholt, Gunnar B.; Stefansson, Bjarki; Scheving, Reynir; Gudmundsdottir, Ágústa 2019 2019-03-15 PMC N PMC7112495 30550824.0 10.1016/j.ijbiomac.2018.12.099 lu0l4njv 0.482561 Yang_2010, Chan_2016, UNKNOWN_1987, Ivarsson_2012 Lin_P_2008, Rozanov_1995
214 Chen_2014 Expression, crystallization and preliminary crystallographic study of the functional mutant (N60K) of nonstructural protein 9 from Human coronavirus HKU1 Chen, Xia; Tan, Yusheng; Wang, Fenghua; Wang, Jinshan; Zhao, Qi; Li, Shuang; Fu, Sheng; Chen, Cheng; Yang, Haitao 2014 2014-11-14 PMC N PMC4259225 25484211.0 10.1107/s2053230x14023085 c1b1teht 0.482243 Pong_2011, Gorbalenya_1988, Kang_2009, Li_C_2013, Rice_1992 Yang_2009, Huo_T_2015, Yu_K_2012
215 Polster_2006 Solid Phase Synthesis of Dual Labeled Peptides: Development of Cell Permeable Calpain Specific Substrates Polster, Brian M.; Arze, Rafael; Lyttle, Matthew H.; Nicholls, David G.; Hudson, Derek 2006 2006-11-30 PMC N PMC7088158 10.1007/s10989-006-9049-9 322skrqg 0.481869 Chan_2016, Tsai_2013, Naito_2007, Jiang_2011 Dude_2008, Prior_2013, Joshi_2017, Fugère_2005
216 Kao_R_2004 Characterization of SARS-CoV main protease and identification of biologically active small molecule inhibitors using a continuous fluorescence-based assay Kao, Richard Y.; To, Amanda P.C.; Ng, Louisa W.Y.; Tsui, Wayne H.W.; Lee, Terri S.W.; Tsoi, Hoi-Wah; Yuen, Kwok-Yung 2004 2004-10-22 PMC N PMC7134596 15498556.0 10.1016/j.febslet.2004.09.026 uv3uoyr1 0.480622 Tallmadge_2008, Armesto_2007, Rice_1992, Keep_2014, Naito_2007 Kuo_C_2004, Zhu_L_2011, Zhou_2011, Rut_W_2020
217 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 0.480622 Smith_2003, Ivarsson_2012, UNKNOWN_1987, Sato_2019, Sundaramoorthy_2018 Buller_2012, Myllykoski_2017
218 Chuck_2013 Design, synthesis and crystallographic analysis of nitrile-based broad-spectrum peptidomimetic inhibitors for coronavirus 3C-like proteases Chuck, Chi-Pang; Chen, Chao; Ke, Zhihai; Chi-Cheong Wan, David; Chow, Hak-Fun; Wong, Kam-Bo 2013 2013-01-31 None N PMC7115530 23202846.0 10.1016/j.ejmech.2012.10.053 ee3v08wd 0.480570 Pong_2011, Meyerson_2017, Li_C_2017, Ban_J_2018, Naito_2007 van_der_Linden_2014, Kuo_C_2008, Becker_2016, Lee_C_2009
219 Sun_H_2003 Molecular cloning, expression, purification, and mass spectrometric characterization of 3C-like protease of SARS coronavirus Sun, Haifang; Luo, Haibin; Yu, Changying; Sun, Tao; Chen, Jing; Peng, Shuying; Qin, Jun; Shen, Jianhua; Yang, Yiming; Xie, Youhua; Chen, Kaixian; Wang, Yuan; Shen, Xu; Jiang, Hualiang 2003 2003-12-31 PMC N PMC7129208 14965777.0 10.1016/j.pep.2003.08.016 7wfdwou8 0.480466 Armesto_2007, Rice_1992, Pong_2011, Keep_2014, Bickerton_2017 Wang_2009, Ren_A_2004, Lin_C_2004, Du_L_2007
220 Peer_2011 The role of multifunctional M1 metallopeptidases in cell cycle progression Peer, Wendy Ann 2011 2011-01-21 PMC N PMC3091800 21258033.0 10.1093/aob/mcq265 q5pcqpsl 0.480266 Blank_2017, Ivarsson_2012, Volmer_2010, Connelly_1996, Greene_2012 Sun_D_2016, Zhang_2015, Deng_2019
221 Lu_X_1996 Intracellular andin Vitro-Translated 27-kDa Proteins Contain the 3C-like Proteinase Activity of the Coronavirus MHV-A59 Lu, Xiaotao; Lu, Yiqi; Denison, Mark R. 1996 1996-08-15 PMC N PMC7130580 8806521.0 10.1006/viro.1996.0434 j32352te 0.477280 Yang_2010, Pong_2011, Chen_2015, Piñón_1997, Kang_2009 Piñón_1997, Denison_1992
222 Jeon_2010 ISG15 and immune diseases Jeon, Young Joo; Yoo, Hee Min; Chung, Chin Ha 2010 2010-05-31 PMC N PMC7127291 20153823.0 10.1016/j.bbadis.2010.02.006 qm7h4qui 0.476925 Choudhury_2017, Ban_J_2018, Martín-Vicente_2017, Blank_2017, El_Motiam_2019 Morales_2013, Zhang_2011, Catic_2007
223 Bouvet_2014 Coronavirus Nsp10, a Critical Co-factor for Activation of Multiple Replicative Enzymes Bouvet, Mickaël; Lugari, Adrien; Posthuma, Clara C.; Zevenhoven, Jessika C.; Bernard, Stéphanie; Betzi, Stéphane; Imbert, Isabelle; Canard, Bruno; Guillemot, Jean-Claude; Lécine, Patrick; Pfefferle, Susanne; Drosten, Christian; Snijder, Eric J.; Decroly, Etienne; Morelli, Xavier 2014 2014-07-29 PMC N PMC4162180 25074927.0 10.1074/jbc.m114.577353 udwomjop 0.476182 Yasuda-Inoue_2013, Pong_2011, Stork_2011, Meyerson_2017, Kang_2009 Subissi_2014
224 Žaja_2012 Molecular Insights into Poly(ADP-ribose) Recognition and Processing Žaja, Roko; Mikoč, Andreja; Barkauskaite, Eva; Ahel, Ivan 2012 2012-12-21 COMM-USE N PMC4030884 24970154.0 10.3390/biom3010001 5j82sta8 0.475215 Blank_2017, Choudhury_2017, Dubois_2016, Ivarsson_2012, Taschuk_2020 Bütepage_2015, Jankevicius_2013, Krietsch_2013
225 Kolatkar_1992 Preliminary X-ray crystallographic analysis of intercellular adhesion molecule-1 Kolatkar, Prasanna R.; Oliveira, Marcos A.; Rossmann, Michael G.; Robbins, Arthur H.; Katti, Suresh K.; Hoover-Litty, Helana; Forte, Carla; Greve, Jeffrey M.; McClelland, Alan; Olson, Norman H. 1992 1992-06-20 PMC N 1351949.0 10.1016/0022-2836(92)90110-6 ywbnfb2j 0.474902 UNKNOWN_1987, Bastien_2003, Callison_1999, UNKNOWN_1993 Brandmann_2015, Moulaei_2010, Ziółkowska_2006
226 Ulferts_2010 Characterization of Bafinivirus Main Protease Autoprocessing Activities Ulferts, Rachel; Mettenleiter, Thomas C.; Ziebuhr, John 2010 2010-11-10 None N PMC3020504 21068254.0 10.1128/jvi.01716-10 5vil4pp3 0.473330 Gorbalenya_1988, UNKNOWN_1987, Volmer_2010, Morikawa_1992, Pong_2011 Someya_2008, Piñón_1997
227 Guan_2010 Structures of two elapid snake venom metalloproteases with distinct activities highlight the disulfide patterns in the D domain of ADAMalysin family proteins Guan, Hong-Hsiang; Goh, King-Siang; Davamani, Fabian; Wu, Po-Long; Huang, Yen-Wei; Jeyakanthan, Jeyaraman; Wu, Wen-guey; Chen, Chun-Jung 2010 2010-03-31 PMC N PMC7129284 19932752.0 10.1016/j.jsb.2009.11.009 rwqo6b8x 0.473147 Ivarsson_2012, UNKNOWN_1987, Smith_2003, Chang_2000, Gorbalenya_1988 Tsai_2010
228 Mistry_2006 IgA1 protease Mistry, Dippica; Stockley, Robert A. 2006 2006-12-31 PMC N PMC7108436 16293440.0 10.1016/j.biocel.2005.10.005 6s0peq5f 0.471596 Donnelly_2011, Viswanathan_2010, Taschuk_2020, Bailey-Elkin_2017 Böttcher-Friebertshäuser_2018, El_Najjar_2015
229 Frias-Staheli_2007 Ovarian Tumor Domain-Containing Viral Proteases Evade Ubiquitin- and ISG15-Dependent Innate Immune Responses Frias-Staheli, Natalia; Giannakopoulos, Nadia V.; Kikkert, Marjolein; Taylor, Shannon L.; Bridgen, Anne; Paragas, Jason; Richt, Juergen A.; Rowland, Raymond R.; Schmaljohn, Connie S.; Lenschow, Deborah J.; Snijder, Eric J.; García-Sastre, Adolfo; Virgin, Herbert Whiting 2007 2007-12-13 None N PMC2184509 18078692.0 10.1016/j.chom.2007.09.014 9560zu76 0.471039 Ban_J_2018, Meyerson_2017, Greene_2012, Yasuda-Inoue_2013 van_der_Linden_2014
230 Deng_2019 Structure-Guided Mutagenesis Alters Deubiquitinating Activity and Attenuates Pathogenesis of a Murine Coronavirus Xufang Deng; Yafang Chen; Anna M. Mielech; Matthew Hackbart; Kristina R. Kesely; Robert C. Mettelman; Amornrat O’Brien; Mackenzie E. Chapman; Andrew D. Mesecar; Susan C. Baker 2019 2019-09-25 BioRxiv N 10.1101/782409 l3qp0n9f 0.470971 Ban_J_2018, Meyerson_2017, Li_C_2017, Kumar_2016, Kang_2009 Yu_L_2017, van_der_Linden_2014, Mielech_2014
231 Yan_J_2007 RAP80 interacts with the SUMO-conjugating enzyme UBC9 and is a novel target for sumoylation Yan, Jun; Yang, Xiao-Ping; Kim, Yong-Sik; Joo, Joung Hyuck; Jetten, Anton M. 2007 2007-10-01 PMC N PMC2049087 17698038.0 10.1016/j.bbrc.2007.07.158 1yjd3rky 0.470433 Blank_2017, Choudhury_2017, Sato_2019, Ban_J_2018 Sato_2019, Kuo_D_2011, Tsukamoto_2013, Choudhury_2017
232 Jupin_2017 A mobile loop near the active site acts as a switch between the dual activities of a viral protease/deubiquitinase Jupin, Isabelle; Ayach, Maya; Jomat, Lucile; Fieulaine, Sonia; Bressanelli, Stéphane 2017 2017-11-08 COMM-USE N PMC5695851 29117247.0 10.1371/journal.ppat.1006714 8stgwlfp 0.470156 Stork_2011, Pong_2011, Kang_2009, Volmer_2010, Gomis-Rüth_2003 Kanitz_2019, Lombardi_2013, Rozanov_1995, Deng_2019
233 Chuck_2011 Profiling of Substrate Specificities of 3C-Like Proteases from Group 1, 2a, 2b, and 3 Coronaviruses Chuck, Chi-Pang; Chow, Hak-Fun; Wan, David Chi-Cheong; Wong, Kam-Bo 2011 2011-11-02 COMM-USE N PMC3206940 22073294.0 10.1371/journal.pone.0027228 0vu7bobr 0.469929 Callison_1999, Yang_2010, Luytjes_1988, Zhou_2011, Lee_H_1991 Lee_C_2009, Kuo_C_2009, Sun_D_2016
234 Shi_X_2011 Endoribonuclease activities of porcine reproductive and respiratory syndrome virus nsp11 was essential for nsp11 to inhibit IFN-β induction Shi, Xibao; Wang, Li; Li, Xuewu; Zhang, Gaiping; Guo, Junqing; Zhao, Dong; Chai, Shujun; Deng, Ruiguang 2011 2011-07-31 PMC N PMC7112683 21481939.0 10.1016/j.molimm.2011.03.004 vdannfrd 0.469467 Ban_J_2018, Meyerson_2017, Yasuda-Inoue_2013, Blank_2017, Stork_2011 Liu_X_2019, Ma_Z_2013
235 Munnur_2019 Reversible ADP-ribosylation of RNA Munnur, Deeksha; Bartlett, Edward; Mikolčević, Petra; Kirby, Ilsa T; Matthias Rack, Johannes Gregor; Mikoč, Andreja; Cohen, Michael S; Ahel, Ivan 2019 2019-06-20 COMM-USE N PMC6582358 31216043.0 10.1093/nar/gkz305 l3brhmzq 0.465312 Blank_2017, Stork_2011, Yasuda-Inoue_2013, Taschuk_2020, Choudhury_2017 Jankevicius_2013, Bütepage_2015, Bütepage_2018
236 Ferron_2019 Identification of a Nidovirales Orf1a N7-guanine cap Methyltransferase signature-sequence as a genetic marker of large genome Tobaniviridae François Ferron; Humberto Julio Debat; Etienne Decroly; Bruno Canard 2019 2019-05-17 BioRxiv N 10.1101/639369 lnf2mj29 0.461314 Gorbalenya_1988, Stork_2011, Yasuda-Inoue_2013, Pong_2011, Payne_2017
237 Morin_2010 The N-Terminal Domain of the Arenavirus L Protein Is an RNA Endonuclease Essential in mRNA Transcription Morin, Benjamin; Coutard, Bruno; Lelke, Michaela; Ferron, François; Kerber, Romy; Jamal, Saïd; Frangeul, Antoine; Baronti, Cécile; Charrel, Rémi; de Lamballerie, Xavier; Vonrhein, Clemens; Lescar, Julien; Bricogne, Gérard; Günther, Stephan; Canard, Bruno 2010 2010-09-16 COMM-USE N PMC2940758 20862324.0 10.1371/journal.ppat.1001038 arwaj4yp 0.461229 Pong_2011, Gorbalenya_1988, Rice_1992, Stork_2011, Ryu_W_2017
238 Ekkebus_2014 Catching a DUB in the act: novel ubiquitin-based active site directed probes Ekkebus, Reggy; Flierman, Dennis; Geurink, Paul P; Ovaa, Huib 2014 2014-12-31 PMC N 25461387.0 10.1016/j.cbpa.2014.10.005 7z7mu6gn 0.461037 Choudhury_2017, Berkhout_2006, Rytkönen_2007, Shi_J_2012, Bailey-Elkin_2017 Sato_2019, Deng_2019, Flierman_2016
239 Mönttinen_2019 Structural comparison strengthens the higher-order classification of proteases related to chymotrypsin Mönttinen, Heli A. M.; Ravantti, Janne J.; Poranen, Minna M. 2019 2019-05-17 COMM-USE N PMC6524800 31100077.0 10.1371/journal.pone.0216659 h11kclwx 0.460824 Gorbalenya_1988, Dolja_2006, Gorbalenya_1991, Mushegian_2018 Tsai_2010, Rozanov_1995
240 Graham_2006 Replication of Murine Hepatitis Virus Is Regulated by Papain-Like Proteinase 1 Processing of Nonstructural Proteins 1, 2, and 3 Graham, Rachel L.; Denison, Mark R. 2006 2006-09-13 None N PMC1642617 16971428.0 10.1128/jvi.01428-06 cgq4szcn 0.460400 Stork_2011, Meyerson_2017, Brockway_2005, Pong_2011, Volmer_2010 Brockway_2005
241 Barrila_2006 Long Range Cooperative Interactions Modulate Dimerization in SARS 3CL(pro) Barrila, Jennifer; Bacha, Usman; Freire, Ernesto 2006 2006-12-01 PMC N PMC2570436 17154528.0 10.1021/bi0616302 fxz80tr1 0.460184 Smith_2003, Ivarsson_2012, UNKNOWN_1987, Blank_2017, Vaughan_2012 Wei_P_2006, Cheng_2010, Lee_H_2013, Barrila_2010
242 Kuo_C_2008 Design, synthesis, and evaluation of 3C protease inhibitors as anti-enterovirus 71 agents Kuo, Chih-Jung; Shie, Jiun-Jie; Fang, Jim-Min; Yen, Guei-Rung; Hsu, John T.-A.; Liu, Hun-Ge; Tseng, Sung-Nain; Chang, Shih-Cheng; Lee, Ching-Yin; Shih, Shin-Ru; Liang, Po-Huang 2008 2008-08-01 PMC N PMC7125518 18583140.0 10.1016/j.bmc.2008.06.015 r15wx6qf 0.458009 Yang_2010, Kang_2009, Meyerson_2017, Vaughan_2012, Naito_2007 van_der_Linden_2014, Grazioso_2012, Zhu_X_2015
243 Saraswat_2020 Hepatitis E Virus Cysteine Protease Has Papain Like Properties Validated by in silico Modeling and Cell-Free Inhibition Assays Saraswat, Shweta; Chaudhary, Meenakshi; Sehgal, Deepak 2020 2020-01-23 COMM-USE N PMC6989534 32039053.0 10.3389/fcimb.2019.00478 o9kc3x6z 0.457936 Kang_2009, Pong_2011, Stork_2011, Yang_2010, Volmer_2010 van_der_Linden_2014
244 Han_Y_2007 Mutational analysis of a helicase motif-based RNA 5′-triphosphatase/NTPase from bamboo mosaic virus Han, Yu-Tsung; Tsai, Chia-Sheng; Chen, Ya-Chio; Lin, Ming-Kuem; Hsu, Yau-Heiu; Meng, Menghsiao 2007 2007-10-10 PMC N PMC7103348 17585982.0 10.1016/j.virol.2007.05.013 wtrt13ij 0.457927 Stork_2011, Kang_2009, Yasuda-Inoue_2013, Blank_2017, Meyerson_2017 Someya_2008, Rozanov_1995
245 Bailey-Elkin_2014 Crystal Structure of the Middle East Respiratory Syndrome Coronavirus (MERS-CoV) Papain-like Protease Bound to Ubiquitin Facilitates Targeted Disruption of Deubiquitinating Activity to Demonstrate Its Role in Innate Immune Suppression Bailey-Elkin, Ben A.; Knaap, Robert C. M.; Johnson, Garrett G.; Dalebout, Tim J.; Ninaber, Dennis K.; van Kasteren, Puck B.; Bredenbeek, Peter J.; Snijder, Eric J.; Kikkert, Marjolein; Mark, Brian L. 2014 2014-10-15 PMC N PMC4263872 25320088.0 10.1074/jbc.m114.609644 3wlzfyyh 0.456403 Meyerson_2017, Ban_J_2018, Pong_2011, Yasuda-Inoue_2013, Stork_2011 Knaap_2019
246 Teng_2002 Further in vitro characterization of mouse hepatitis virus papain-like proteinase 1: Cleavage sequence requirements within PP1a Teng, Henry; Weiss, Susan R. 2002 2002-01-01 PMC N PMC7095356 11935466.0 10.1080/13550280290049598 sm7gsmvf 0.454999 Stork_2011, Meyerson_2017, Pong_2011, Kang_2009
247 Jankevicius_2013 A family of macrodomain proteins reverses cellular mono-ADP-ribosylation Jankevicius, Gytis; Hassler, Markus; Golia, Barbara; Rybin, Vladimir; Zacharias, Martin; Timinszky, Gyula; Ladurner, Andreas G 2013 2013-03-10 None N PMC7097781 23474712.0 10.1038/nsmb.2523 fv0ag2be 0.454999 Blank_2017, El_Motiam_2019, Dubois_2016, Taschuk_2020, Ivarsson_2012 Bütepage_2015, Munnur_2019, Appel_2016
248 Tomar_2015 Ligand-induced Dimerization of Middle East Respiratory Syndrome (MERS) Coronavirus nsp5 Protease (3CL(pro)): IMPLICATIONS FOR nsp5 REGULATION AND THE DEVELOPMENT OF ANTIVIRALS Tomar, Sakshi; Johnston, Melanie L.; St. John, Sarah E.; Osswald, Heather L.; Nyalapatla, Prasanth R.; Paul, Lake N.; Ghosh, Arun K.; Denison, Mark R.; Mesecar, Andrew D. 2015 2015-06-08 PMC N PMC4528106 26055715.0 10.1074/jbc.m115.651463 rgdynmla 0.454281 Pong_2011, Kang_2009, Stork_2011, Ban_J_2018, Meyerson_2017 Kumar_2007
249 Schomburg_2001 Molecular characterization of a puromycin‐insensitive leucyl‐specific aminopeptidase, PILS‐AP Schomburg, Lutz; Kollmus, Heike; Friedrichsen, Sönke; Bauer, Karl 2001 2001-12-25 PMC N PMC7164119 10824104.0 10.1046/j.1432-1327.2000.01348.x rle7t4vg 0.454158 UNKNOWN_1987, Ivarsson_2012, Volmer_2010, UNKNOWN_1993, Gorbalenya_1988
250 Cho_C_2016 Macro Domain from Middle East Respiratory Syndrome Coronavirus (MERS-CoV) Is an Efficient ADP-ribose Binding Module: CRYSTAL STRUCTURE AND BIOCHEMICAL STUDIES Cho, Chao-Cheng; Lin, Meng-Hsuan; Chuang, Chien-Ying; Hsu, Chun-Hua 2016 2016-01-05 PMC N PMC4777827 26740631.0 10.1074/jbc.m115.700542 uq2idlca 0.454119 Ivarsson_2012, Pong_2011, Hao_W_2017, Gorbalenya_1988, Gomis-Rüth_2003 Saikatendu_2005
251 Deaton_2016 Biochemical and Structural Insights into the Preference of Nairoviral DeISGylases for Interferon-Stimulated Gene Product 15 Originating from Certain Species Deaton, M. K.; Dzimianski, J. V.; Daczkowski, C. M.; Whitney, G. K.; Mank, N. J.; Parham, M. M.; Bergeron, E.; Pegan, S. D. 2016 2016-07-13 PMC N PMC5008091 27412597.0 10.1128/jvi.00975-16 vd0pytrq 0.453183 Meyerson_2017, Ban_J_2018, Trobaugh_2017, Berkhout_2006, Rice_1992 Niemeyer_2018
252 Parvez_2014 Molecular modeling and analysis of hepatitis E virus (HEV) papain-like cysteine protease Parvez, Mohammad Khalid; Khan, Azmat Ali 2014 2014-01-22 PMC N PMC7114377 24321124.0 10.1016/j.virusres.2013.11.016 ok5fi567 0.453112 Gorbalenya_1988, Pong_2011, Kang_2009, Volmer_2010, Luytjes_1988 Rozanov_1995, Someya_2008
253 Fang_2008 Proteolytic processing of polyproteins 1a and 1ab between non-structural proteins 10 and 11/12 of Coronavirus infectious bronchitis virus is dispensable for viral replication in cultured cells Fang, Shou Guo; Shen, Hongyuan; Wang, Jibin; Tay, Felicia P.L.; Liu, Ding Xiang 2008 2008-09-30 PMC N PMC7103401 18678384.0 10.1016/j.virol.2008.06.038 lawrigpl 0.452881 Tallmadge_2008, Rice_1992, Brockway_2005, Meyerson_2017, Kang_2009 Graham_2006
254 Loch_2012 A microarray of ubiquitylated proteins for profiling deubiquitylase activity reveals the critical roles of both chain and substrate Loch, Christian M.; Strickler, James E. 2012 2012-11-30 PMC N PMC7113913 22626734.0 10.1016/j.bbamcr.2012.05.006 qkapbncy 0.451018 Choudhury_2017, Boggio_2006, Cox_E_2015, Rytkönen_2007, Lindner_2007 Flierman_2016, Catic_2007
255 Chou_2012 Differential domain structure stability of the severe acute respiratory syndrome coronavirus papain-like protease Chou, Ya-Wen; Cheng, Shu-Chun; Lai, Hsing-Yi; Chou, Chi-Yuan 2012 2012-04-15 None N PMC7094420 22391227.0 10.1016/j.abb.2012.02.015 px6dfzz4 0.450852 UNKNOWN_1987, Smith_2003, Pong_2011, Ivarsson_2012, Kang_2009 Yu_L_2017, Tsai_2010
256 van_der_Heden_van_Noort_2018 How to Target Viral and Bacterial Effector Proteins Interfering with Ubiquitin Signaling van der Heden van Noort, Gerbrand J.; Ovaa, Huib 2018 2018-09-04 PMC N PMC7120092 30178261.0 10.1007/82_2018_134 bcaerchf 0.449939 Choudhury_2017, Ivarsson_2012, El_Motiam_2019, Lindner_2007, Viswanathan_2010 Wimmer_2015, van_Tol_2017, Bailey-Elkin_2017
257 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 0.449434 Smith_2003, Pong_2011, Chan_2016, Stork_2011, Ivarsson_2012 van_der_Linden_2014, Grazioso_2012, Kuo_C_2008
258 Sutton_2004 The nsp9 Replicase Protein of SARS-Coronavirus, Structure and Functional Insights Sutton, Geoff; Fry, Elizabeth; Carter, Lester; Sainsbury, Sarah; Walter, Tom; Nettleship, Joanne; Berrow, Nick; Owens, Ray; Gilbert, Robert; Davidson, Andrew; Siddell, Stuart; Poon, Leo L.M.; Diprose, Jonathan; Alderton, David; Walsh, Martin; Grimes, Jonathan M.; Stuart, David I. 2004 2004-02-29 PMC N PMC7135010 14962394.0 10.1016/j.str.2004.01.016 ihwwfnbn 0.447953 Pong_2011, Gorbalenya_1988, UNKNOWN_1987, Kang_2009, Stork_2011 Kumar_2007
259 Hanh_Nguyen_2011 Virtual screening identification of novel severe acute respiratory syndrome 3C-like protease inhibitors and in vitro confirmation Hanh Nguyen, Thi Thanh; Ryu, Hwa-Ja; Lee, Se-Hoon; Hwang, Soonwook; Breton, Vincent; Rhee, Joon Haeng; Kim, Doman 2011 2011-05-15 PMC N PMC7126700 21470860.0 10.1016/j.bmcl.2011.03.034 h37vfvjy 0.445857 Yang_2010, Naito_2007, Pong_2011, Kuang_2005, Lu_Y_1997 Mukherjee_2008, Liu_W_2014, Mukherjee_2011
260 Basak_2009 A Novel Enediynyl Peptide Inhibitor of Furin That Blocks Processing of proPDGF-A, B and proVEGF-C Basak, Ajoy; Khatib, Abdel-Majid; Mohottalage, Dayani; Basak, Sarmistha; Kolajova, Maria; Bag, Subhendu Sekhar; Basak, Amit 2009 2009-11-26 COMM-USE N PMC2778948 19956642.0 10.1371/journal.pone.0007700 jps5pj7x 0.445578 Smith_2003, Choudhury_2017, Blank_2017, Ivarsson_2012, UNKNOWN_1987 Grazioso_2012, Kuo_C_2008
261 Krieg_2020 Mono-ADP-ribosylation by ARTD10 restricts Chikungunya virus replication by interfering with the proteolytic activity of nsP2 Sarah Krieg; Fabian Pott; Laura Eckei; Maud Verheirstraeten; Mareike Bütepage; Barbara Lippok; Christine Goffinet; Bernhard Lüscher; Patricia Verheugd 2020 2020-01-08 BioRxiv N 10.1101/2020.01.07.896977 2vecg9op 0.443349 Meyerson_2017, Tallmadge_2008, Rice_1992, Li_C_2014, den_Boon_2010 Wilde_2019, Abraham_2020
262 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 0.442731 Schlieker_2007, Smith_2003, Cleary_2015, Ho_S_2009, Ivarsson_2012 Grazioso_2012, Yin_J_2007, Becker_2016, Lee_T_2005
263 Mandadapu_2013 Macrocyclic inhibitors of 3C and 3C-like proteases of picornavirus, norovirus, and coronavirus Mandadapu, Sivakoteswara Rao; Weerawarna, Pathum M.; Prior, Allan M.; Uy, Roxanne Adeline Z.; Aravapalli, Sridhar; Alliston, Kevin R.; Lushington, Gerald H.; Kim, Yunjeong; Hua, Duy H.; Chang, Kyeong-Ok; Groutas, William C. 2013 2013-07-01 None N PMC3750990 23727045.0 10.1016/j.bmcl.2013.05.021 5d7rixs6 0.440094 Crowe_2014, Pillaiyar_2020, Tallmadge_2008, Ryu_W_2017 Prior_2013, Im_I_2009, Dude_2008, van_der_Linden_2014
264 Gorbalenya_1991 Putative papain-related thiol proteases of positive-strand RNA viruses Identification of rubi- and aphthovirus proteases and delineation of a novel conserved domain associated with proteases of rubi-, α- and coronaviruses Gorbalenya, Alexander E.; Koonin, Eugene V.; Lai, Michael M.-C. 1991 1991-08-19 PMC N PMC7130274 1652473.0 10.1016/0014-5793(91)81034-6 s5nzqdyy 0.439662 Rice_1992, Gorbalenya_1988, Pong_2011, Kang_2009 Rozanov_1995
265 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 0.438047 Ivarsson_2012, Volmer_2010, UNKNOWN_1987, Chan_2016, Qi_Z_2018 Rut_W_2020, Xia_B_2011, Niemeyer_2018, Zhu_L_2011
266 Tanco_2010 Structure–Function Analysis of the Short Splicing Variant Carboxypeptidase Encoded by Drosophila melanogaster silver Tanco, Sebastián; Arolas, Joan L.; Guevara, Tibisay; Lorenzo, Julia; Avilés, Francesc X.; Gomis-Rüth, F. Xavier 2010 2010-08-20 PMC N PMC7089606 20600119.0 10.1016/j.jmb.2010.06.035 6asieplk 0.437841 UNKNOWN_1987, Ivarsson_2012, Volmer_2010, Krause_1987, Smith_2003 Rozanov_1995, Someya_2008
267 Lugari_2010 Molecular Mapping of the RNA Cap 2′-O-Methyltransferase Activation Interface between Severe Acute Respiratory Syndrome Coronavirus nsp10 and nsp16 Lugari, Adrien; Betzi, Stephane; Decroly, Etienne; Bonnaud, Emmanuel; Hermant, Aurélie; Guillemot, Jean-Claude; Debarnot, Claire; Borg, Jean-Paul; Bouvet, Mickaël; Canard, Bruno; Morelli, Xavier; Lécine, Patrick 2010 2010-08-10 PMC N PMC2963367 20699222.0 10.1074/jbc.m110.120014 h4cl022f 0.437342 Gorbalenya_1988, Yasuda-Inoue_2013, Volmer_2010, Pong_2011, Li_C_2013
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269 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 0.436187 Smith_2003, Sato_2019, UNKNOWN_1987, Schlieker_2007 Buller_2012, Myllykoski_2017, Kanitz_2019
270 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 0.436075 Smith_2003, Ho_S_2009, Ivarsson_2012, Schlieker_2007, Someya_2008 Someya_2008, Kanitz_2019, Myllykoski_2017, Lee_G_2012
271 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 0.435588 Smith_2003, Ivarsson_2012, Sato_2019, Hou_L_2014, Gorbalenya_1988 Scrima_2006, Myllykoski_2017, Punekar_2012, Someya_2008
272 Yeh_H_2009 Channel catfish, Ictalurus punctatus, cysteine proteinases: Cloning, characterisation and expression of cathepsin H and L Yeh, Hung-Yueh; Klesius, Phillip H. 2009 2009-02-28 PMC N PMC7111680 19084602.0 10.1016/j.fsi.2008.11.010 uau5ygys 0.434446 Luytjes_1988, Yang_2010, Pager_2006, UNKNOWN_1987 Neves_2015, El_Najjar_2015
273 Eid_E_2020 Total Chemical Synthesis of ISGylated-Ubiquitin Hybrid Chain Assisted by Acetamidomethyl Derivatives with Dual Functions Eid, Emad; Boross, Gábor N.; Sun, Hao; Msallam, Muna; Singh, Sumeet K.; Brik, Ashraf 2020 2020-02-18 PMC N PMC7086396 32069038.0 10.1021/acs.bioconjchem.0c00026 ukvr6d4n 0.434446 Ivarsson_2012, Choudhury_2017, Volmer_2010, UNKNOWN_1987, Berkhout_2006 Deng_2019, Buller_2012, Wimmer_2015
274 Pascale_2014 The Lepidopteran endoribonuclease-U domain protein P102 displays dramatically reduced enzymatic activity and forms functional amyloids Pascale, Mariarosa; Laurino, Simona; Vogel, Heiko; Grimaldi, Annalisa; Monné, Magnus; Riviello, Lea; Tettamanti, Gianluca; Falabella, Patrizia 2014 2014-11-30 PMC N PMC7124382 25043263.0 10.1016/j.dci.2014.07.009 wkg26kqj 0.430572 UNKNOWN_1987, Ivarsson_2012, Volmer_2010, Berkhout_2006 Someya_2008, Michalska_2018, Deng_2019, Rozanov_1995
275 Huo_T_2015 Crystallization and preliminary X-ray crystallographic analysis of a nonstructural protein 15 mutant from Human coronavirus 229E Huo, Tong; Liu, Xiang 2015 2015-08-25 PMC N PMC4555923 26323302.0 10.1107/s2053230x15007359 gg1tcfzq 0.430310 Armesto_2007, Hewson_2007, Keep_2014, Bickerton_2017, Keep_2015 Yang_2009, Yu_K_2012
276 Park_2009 The nsP3 macro domain is important for Sindbis virus replication in neurons and neurovirulence in mice Park, Eunhye; Griffin, Diane E. 2009 2009-06-05 None N PMC2683903 19395054.0 10.1016/j.virol.2009.03.031 ikikdmjw 0.430310 Yang_2010, Volmer_2010, Kang_2009, Brockway_2005, Li_C_2013 Brockway_2005
277 Takahashi_2013 Structural and Inhibitor Studies of Norovirus 3C-like Proteases Takahashi, Daisuke; Kim, Yunjeong; Lovell, Scott; Prakash, Om; Groutas, William C; Chang, Kyeong-Ok 2013 2013-12-01 PMC N PMC3840063 24055466.0 10.1016/j.virusres.2013.09.008 ed90alpi 0.430025 Pong_2011, Stork_2011, Kang_2009, Tallmadge_2008, Rice_1992 van_der_Linden_2014, Sun_D_2016, Someya_2008
278 Sulea_2005 Binding site‐based classification of coronaviral papain‐like proteases Sulea, Traian; Lindner, Holger A.; Purisima, Enrico O.; Ménard, Robert 2005 2005-12-15 PMC N PMC7167981 16358325.0 10.1002/prot.20802 0mr97rtq 0.429949 Gorbalenya_1988, Volmer_2010, Pong_2011, Morikawa_1992, Naito_2007
279 Durfee_2012 The ISG15 Conjugation System Durfee, Larissa A.; Huibregtse, Jon M. 2012 2012-01-01 None N PMC5912894 22350882.0 10.1007/978-1-61779-474-2_9 onziznov 0.429342 Blank_2017, Ban_J_2018, Yan_J_2007, Choudhury_2017, Greene_2012 Morales_2013, Durfee_2010, Jeon_2010
280 Kalisch_2012 New readers and interpretations of poly(ADP-ribosyl)ation Kalisch, Thomas; Amé, Jean-Christophe; Dantzer, Françoise; Schreiber, Valérie 2012 2012-09-30 PMC N PMC7127722 22766145.0 10.1016/j.tibs.2012.06.001 qbko22vf 0.429187 Ivarsson_2012, Choudhury_2017, Rytkönen_2007, Berkhout_2006, Dubois_2016 Žaja_2012, Jankevicius_2013, Hakmé_2008, Bütepage_2015
281 Jacobs_2013 Discovery, synthesis, and structure-based optimization of a series of N-(tert-butyl)-2-(N-arylamido)-2-(pyridin-3-yl) acetamides (ML188) as potent non-covalent small molecule inhibitors of the severe acute respiratory syndrome coronavirus (SARS-CoV) 3CL protease Jacobs, Jon; Tokars, Valerie; Zhou, Ya; Turlington, Mark; Saldanha, S. Adrian; Chase, Peter; Eggler, Aimee; Dawson, Eric S.; Baez-Santos, Yahira M.; Tomar, Sakshi; Mielech, Anna M.; Baker, Susan C.; Lindsley, Craig W.; Hodder, Peter; Mesecar, Andrew; Stauffer, Shaun R. 2013 2013-01-03 PMC N PMC3569073 23231439.0 10.1021/jm301580n 53vslprn 0.429011 Pong_2011, Kang_2009, Stork_2011, Meyerson_2017, Naito_2007 Tsoukala_2010, Manta_2009, Pomeisl_2019, Turlington_2013
282 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 0.427103 Chan_2016, Ivarsson_2012, Guo_Y_2013, Pong_2011, Smith_2003 Wei_P_2006, Cheng_2010, Lee_T_2007, Lin_P_2008
283 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 0.426786 Langosch_2011, Guo_Y_2013, Smith_2003, Wang_2014, Ivarsson_2012 Du_Q_2004, Grazioso_2012, Wei_P_2006, Kanitz_2019
284 Lee_J_2015 Facilitated Tau Degradation by USP14 Aptamers via Enhanced Proteasome Activity Lee, Jung Hoon; Shin, Seung Kyun; Jiang, Yanxialei; Choi, Won Hoon; Hong, Chaesun; Kim, Dong-Eun; Lee, Min Jae 2015 2015-06-04 COMM-USE N PMC4455164 26041011.0 10.1038/srep10757 cnvigvmv 0.425534 Blank_2017, Greene_2012, Choudhury_2017, Yan_J_2007, Yasuda-Inoue_2013 Deng_2019
285 Ferron_2019 A N7-guanine RNA cap methyltransferase signature-sequence as a genetic marker of large genome, non-mammalian Tobaniviridae Ferron, François; Debat, Humberto J; Shannon, Ashleigh; Decroly, Etienne; Canard, Bruno 2019 2019-12-19 NONCOMM N PMC7107822 10.1093/nargab/lqz022 lmpxb359 0.425357 Gorbalenya_1988, Stork_2011, den_Boon_2010, Pong_2011, Yasuda-Inoue_2013 Ferron_2019
286 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 0.424723 Walker_2010, UNKNOWN_2010, Wiwanitkit_2014, Chretien_2016 Niemeyer_2018, Kumar_2007, Simmons_2013, Zeng_2004
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288 Sydnes_2006 Synthesis of glutamic acid and glutamine peptides possessing a trifluoromethyl ketone group as SARS-CoV 3CL protease inhibitors Sydnes, Magne O.; Hayashi, Yoshio; Sharma, Vinay K.; Hamada, Takashi; Bacha, Usman; Barrila, Jennifer; Freire, Ernesto; Kiso, Yoshiaki 2006 2006-09-04 None N PMC7111793 10.1016/j.tet.2006.06.052 mf0k7h27 0.423899 Largo_2016, Abou-Hamdan_2018, Choudhury_2011, David_2013, Yang_2010 Rauvolfova_2008, Grazioso_2012, Głowacka_2015, Tsoukala_2010
289 Rao_T_2018 Importance of homo-dimerization of Fanconi-associated nuclease 1 in DNA flap cleavage Rao, Timsi; Longerich, Simonne; Zhao, Weixing; Aihara, Hideki; Sung, Patrick; Xiong, Yong 2018 2018-04-30 PMC N PMC7105229 29518739.0 10.1016/j.dnarep.2018.02.007 rzw8hwzw 0.423809 Stork_2011, Gorbalenya_1988, Hou_L_2014, Pong_2011, Sato_2019 Zhao_2014, Moulaei_2010, Sato_2019, Kanitz_2019
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297 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 0.420022 Berkhout_2006, Boggio_2006, Volmer_2010, Meyerson_2017, Kang_2009 Zhu_X_2015, Kuo_C_2008, van_der_Linden_2014
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301 Xu_H_2001 Further Identification and Characterization of Novel Intermediate and Mature Cleavage Products Released from the ORF 1b Region of the Avian Coronavirus Infectious Bronchitis Virus 1a/1b Polyprotein Xu, H.Y.; Lim, K.P.; Shen, S.; Liu, D.X. 2001 2001-09-30 PMC N PMC7134593 11601893.0 10.1006/viro.2001.1098 5us4se5o 0.417019 Volmer_2010, Yang_2010, Pong_2011, Shen_2005, Narayanan_2003 Denison_1992
302 Song_2018 iProt-Sub: a comprehensive package for accurately mapping and predicting protease-specific substrates and cleavage sites Song, Jiangning; Wang, Yanan; Li, Fuyi; Akutsu, Tatsuya; Rawlings, Neil D; Webb, Geoffrey I; Chou, Kuo-Chen 2018 2018-04-19 COMM-USE N PMC6556904 29897410.0 10.1093/bib/bby028 78vjzrpx 0.415253 Cho_Y_2005, Chang_2011, Qi_Z_2018, Liu_Z_2008, Dai_Q_2012 Someya_2008, Choo_2009
303 Pastorino_2008 Expression and biochemical characterization of nsP2 cysteine protease of Chikungunya virus Pastorino, Boris A.M.; Peyrefitte, Christophe N.; Almeras, Lionel; Grandadam, Marc; Rolland, Dominique; Tolou, Hugues J.; Bessaud, Maël 2008 2008-02-29 PMC N PMC7114110 17961784.0 10.1016/j.virusres.2007.09.009 nqz4co2b 0.414794 Pong_2011, Lu_P_2016, Tallmadge_2008, Volmer_2010, Rice_1992 Ren_X_2008, van_der_Linden_2014, Sun_D_2019, Karpe_2011
304 Keep_2018 The ADRP domain from a virulent strain of infectious bronchitis virus is not sufficient to confer a pathogenic phenotype to the attenuated Beaudette strain Keep, Sarah; Bickerton, Erica; Armesto, Maria; Britton, Paul 2018 2018-06-12 COMM-USE N PMC6171709 29893665.0 10.1099/jgv.0.001098 ri0ckfyx 0.414567 Tallmadge_2008, Volmer_2010, Li_C_2013, Si_F_2020, Ryu_W_2017 Bickerton_2018
305 Zheng_2008 Specific and efficient cleavage of fusion proteins by recombinant plum pox virus NIa protease Zheng, Nuoyan; Pérez, José de Jesús; Zhang, Zhonghui; Domínguez, Elvira; Garcia, Juan Antonio; Xie, Qi 2008 2008-02-29 PMC N PMC7130002 18024078.0 10.1016/j.pep.2007.10.008 8kj0c09x 0.414281 Yang_2010, Pong_2011, Stork_2011, Tallmadge_2008 van_der_Linden_2014, Eshaghi_2005, Loa_C_2004
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307 van_der_Linden_2014 Application of a cell-based protease assay for testing inhibitors of picornavirus 3C proteases van der Linden, Lonneke; Ulferts, Rachel; Nabuurs, Sander B.; Kusov, Yuri; Liu, Hong; George, Shyla; Lacroix, Céline; Goris, Nesya; Lefebvre, David; Lanke, Kjerstin H.W.; De Clercq, Kris; Hilgenfeld, Rolf; Neyts, Johan; van Kuppeveld, Frank J.M. 2014 2014-03-31 PMC N PMC7113757 24393668.0 10.1016/j.antiviral.2013.12.012 ul0k95x2 0.413348 Stork_2011, Meyerson_2017, Kang_2009, Pong_2011, Rice_1992 Sun_D_2019, Sun_D_2016, Deng_2019
308 Zheng_2006 Insight into the activity of SARS main protease: Molecular dynamics study of dimeric and monomeric form of enzyme Zheng, Kewen; Ma, Guozheng; Zhou, Jinming; Zen, Min; Zhao, Wenna; Jiang, Yongjun; Yu, Qingsen; Feng, Jialiang 2006 2006-11-02 PMC N PMC7167853 17083088.0 10.1002/prot.21160 d2algx16 0.412446 Smith_2003, Ivarsson_2012, Guo_Y_2013, UNKNOWN_1987, Wang_2014
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310 Phakthanakanok_2009 A computational analysis of SARS cysteine proteinase-octapeptide substrate interaction: implication for structure and active site binding mechanism Phakthanakanok, Krongsakda; Ratanakhanokchai, Khanok; Kyu, Khin Lay; Sompornpisut, Pornthep; Watts, Aaron; Pinitglang, Surapong 2009 2009-01-30 COMM-USE N PMC2648740 19208150.0 10.1186/1471-2105-10-s1-s48 8necodtw 0.409059 Ivarsson_2012, Chan_2016, UNKNOWN_1987, Polverino_2017, Callison_1999 Wei_P_2006, Zhu_L_2011, Niu_C_2008, Lee_T_2007
311 Kim_B_2015 Benserazide, the first allosteric inhibitor of Coxsackievirus B3 3C protease Kim, Bo-Kyoung; Cho, Joong-Heui; Jeong, Pyeonghwa; Lee, Youngjin; Lim, Jia Jia; Park, Kyoung Ryoung; Eom, Soo Hyun; Kim, Yong-Chul 2015 2015-07-08 PMC N PMC7094222 26022398.0 10.1016/j.febslet.2015.05.027 4szi4vyd 0.407922 Pong_2011, Choudhury_2017, Kang_2009, Li_C_2017, Naito_2007 Grazioso_2012, Lee_H_2013, Zhong_2009, Zhu_X_2015
312 Chu_L_2006 Rapid peptide-based screening on the substrate specificity of severe acute respiratory syndrome (SARS) coronavirus 3C-like protease by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry Chu, Ling-Hon Matthew; Choy, Wai-Yan; Tsai, Sau-Na; Rao, Zihe; Ngai, Sai-Ming 2006 2006-03-07 PMC N PMC2242481 16600962.0 10.1110/ps.052007306 arivkkj0 0.407835 Luytjes_1988, Yang_2010, Pong_2011, Morikawa_1992, Ivarsson_2012 Lin_C_2004, Kuang_2005, Shan_2004
313 Decroly_2011 Crystal Structure and Functional Analysis of the SARS-Coronavirus RNA Cap 2′-O-Methyltransferase nsp10/nsp16 Complex Decroly, Etienne; Debarnot, Claire; Ferron, François; Bouvet, Mickael; Coutard, Bruno; Imbert, Isabelle; Gluais, Laure; Papageorgiou, Nicolas; Sharff, Andrew; Bricogne, Gérard; Ortiz-Lombardia, Miguel; Lescar, Julien; Canard, Bruno 2011 2011-05-26 COMM-USE N PMC3102710 21637813.0 10.1371/journal.ppat.1002059 nof2qx93 0.407050 Yasuda-Inoue_2013, Pong_2011, Blank_2017, Stork_2011, Meyerson_2017 Chen_2011
314 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 0.405966 Naito_2007, Chang_2011, Volmer_2010, Xu_Z_2012, Siridechadilok_2013 Verschueren_2008, Lee_T_2005, Grazioso_2012, Wei_P_2006
315 Chen_2020 Prediction of the SARS-CoV-2 (2019-nCoV) 3C-like protease (3CL (pro)) structure: virtual screening reveals velpatasvir, ledipasvir, and other drug repurposing candidates Chen, Yu Wai; Yiu, Chin-Pang Bennu; Wong, Kwok-Yin 2020 2020-02-21 COMM-USE Y PMC7062204 32194944.0 10.12688/f1000research.22457.1 f6muhf3d 0.404049 Naito_2007, Luytjes_1988, Gorbalenya_1988, Callison_1999, Volmer_2010 Lin_C_2004, Niu_C_2008, Lee_C_2009
316 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 0.404049 Ivarsson_2012, Smith_2003, Berkhout_2006, UNKNOWN_1987, Chan_2016 Opsenica_2011, Deiab_2015, Mehellou_2010, Basak_2009
317 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 0.402365 Smith_2003, Ivarsson_2012, Schlieker_2007, Yang_2010, Vaughan_2012 Yoshizawa_2020, Shimamoto_2015, Konno_2013, Thanigaimalai_2013
318 Tsai_2010 Essential covalent linkage between the chymotrypsin-like domain and the extra domain of the SARS-CoV main protease Tsai, Meng-Ying; Chang, Wei-Hsin; Liang, Jin-Yi; Lin, Long-Liu; Chang, Gu-Gang; Chang, Hui-Ping 2010 2010-08-28 PMC N PMC7110190 20587646.0 10.1093/jb/mvq071 w2q5468y 0.400305 UNKNOWN_1987, Ivarsson_2012, Smith_2003, Chang_2000, Sato_2019 Piñón_1997
319 Manolaridis_2009 Structure of the C-terminal domain of nsp4 from feline coronavirus Manolaridis, Ioannis; Wojdyla, Justyna A.; Panjikar, Santosh; Snijder, Eric J.; Gorbalenya, Alexander E.; Berglind, Hanna; Nordlund, Pär; Coutard, Bruno; Tucker, Paul A. 2009 2009-08-01 None N PMC2714721 19622868.0 10.1107/s0907444909018253 vmiawdzh 0.398758 Gorbalenya_1988, Pong_2011, Gomis-Rüth_2003, Stork_2011, UNKNOWN_1987 Kanjanahaluethai_2007
320 Krietsch_2013 Reprogramming cellular events by poly(ADP-ribose)-binding proteins Krietsch, Jana; Rouleau, Michèle; Pic, Émilie; Ethier, Chantal; Dawson, Ted M.; Dawson, Valina L.; Masson, Jean-Yves; Poirier, Guy G.; Gagné, Jean-Philippe 2013 2013-12-31 None N PMC3812366 23268355.0 10.1016/j.mam.2012.12.005 yhumk8b8 0.398653 Ivarsson_2012, Blank_2017, Taschuk_2020, Choudhury_2017, Rytkönen_2007 Jankevicius_2013, Žaja_2012, Bütepage_2015
321 Barrila_2010 Mutation of Asn28 disrupts the dimerization and enzymatic activity of SARS 3CL(pro) Barrila, Jennifer; Gabelli, Sandra B.; Bacha, Usman; Amzel, L. Mario; Freire, Ernesto 2010 2010-05-25 PMC N PMC2877132 20420403.0 10.1021/bi1002585 iccni6od 0.397622 Ivarsson_2012, Volmer_2010, Smith_2003, Leung_2012, Trobaugh_2017 Wei_P_2006, Barrila_2006, Sun_D_2016, Cheng_2010
322 Saha_2018 Development of nsP2 protease based cell free high throughput screening assay for evaluation of inhibitors against emerging Chikungunya virus Saha, Amrita; Acharya, Badri Narayan; Priya, Raj; Tripathi, Nagesh K.; Shrivastava, Ambuj; Rao, M. Kameswara; Kesari, Pooja; Narwal, Manju; Tomar, Shailly; Bhagyawant, Sameer S.; Parida, Manmohan; Dash, Paban Kumar 2018 2018-07-17 COMM-USE N PMC6050329 30018455.0 10.1038/s41598-018-29024-2 m7zp4muo 0.397360 Rice_1992, Naito_2007, Berkhout_2006, Tallmadge_2008, Armesto_2007 van_der_Linden_2014, Lee_C_2019, Zhou_2012, Pastorino_2008
323 Onohara_2006 Crystallization and preliminary X-ray characterization of aminopeptidase N from Escherichia coli Onohara, Yuko; Nakajima, Yoshitaka; Ito, Kiyoshi; Xu, Yue; Nakashima, Kanako; Ito, Takashi; Yoshimoto, Tadashi 2006 2006-06-26 PMC N PMC2242940 16820698.0 10.1107/s1744309106021567 pply18om 0.397257 Welling_1987, Luo_K_1996, Nagano_1989, Pekalp_2019 Renzi_2006, Ricagno_2006
324 Liu_W_2014 Synthesis, modification and docking studies of 5-sulfonyl isatin derivatives as SARS-CoV 3C-like protease inhibitors Liu, Wei; Zhu, He-Min; Niu, Guo-Jun; Shi, En-Zhi; Chen, Jie; Sun, Bo; Chen, Wei-Qiang; Zhou, Hong-Gang; Yang, Cheng 2014 2014-01-01 None N PMC7111328 24316352.0 10.1016/j.bmc.2013.11.028 r0h2zhj2 0.395824 Ramajayam_2010, Li_C_2017, Ban_J_2018, Meyerson_2017, Kuang_2005 Niu_C_2008, Adhikari_2017, Zhu_L_2011, Kuo_C_2008
325 Vidal-Albalat_2016 Chapter 6 Natural Products as Cathepsin Inhibitors Vidal-Albalat, Andreu; González, Florenci V. 2016 2016-12-31 PMC N PMC7158365 10.1016/b978-0-444-63749-9.00006-2 3pi2aimv 0.394248 Ramajayam_2010, Saura_1999, Donnelly_2011, Lindner_2007 Dana_2020, Tabares_2011, Grazioso_2012
326 Carrell_1985 α 1-Antitrypsin and the serpins: variation and countervariation Carrell, Robin; Travis, James 1985 1985-01-31 PMC N 10.1016/0968-0004(85)90011-8 muwaixwj 0.394110 Berkhout_2006, Ivarsson_2012, Haasnoot_2010, Smith_2003, Rytkönen_2007
327 Whitaker_2018 APE1: A skilled nucleic acid surgeon Whitaker, Amy M.; Freudenthal, Bret D. 2018 2018-11-30 PMC N 30170830.0 10.1016/j.dnarep.2018.08.012 ddpemgqt 0.392005 Ghosh_2012, Blank_2017, Tonzi_2018, Stork_2011, Trobaugh_2017 Zhao_2014, Pradeepkumar_2012, Ziegler_2018, Nicolas_2016
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329 Parvez_2015 The hepatitis E virus ORF1 ‘X-domain’ residues form a putative macrodomain protein/Appr-1″-pase catalytic-site, critical for viral RNA replication Parvez, Mohammad Khalid 2015 2015-07-15 PMC N PMC7127128 25870943.0 10.1016/j.gene.2015.04.026 ogsazued 0.389951 Volmer_2010, Kang_2009, Li_C_2013, Pong_2011, Brockway_2005 Parvez_2013
330 Wang_2015 Crystallographic analysis of the N-terminal domain of Middle East respiratory syndrome coronavirus nucleocapsid protein Wang, Yong-Sheng; Chang, Chung-ke; Hou, Ming-Hon 2015 2015-07-28 PMC N PMC4528927 26249685.0 10.1107/s2053230x15010146 z8qlvsui 0.389899 Luytjes_1988, Hewson_2007, UNKNOWN_1987, Abraham_1990, Lee_H_1991 Yang_2009, Yu_K_2012, Li_Y_2011
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332 Chuang_2018 6-Thioguanine is a noncompetitive and slow binding inhibitor of human deubiquitinating protease USP2 Chuang, Shang-Ju; Cheng, Shu-Chun; Tang, Hui-Chi; Sun, Chiao-Yin; Chou, Chi-Yuan 2018 2018-02-15 COMM-USE N PMC5814560 29449607.0 10.1038/s41598-018-21476-w eqhgbxqq 0.388004 Blank_2017, Yan_J_2007, Choudhury_2017, Greene_2012, Martín-Vicente_2017 Deng_2019, Chen_2019, Grazioso_2012
333 Zhu_X_2007 High incidence of ubiquitin‐like domains in human ubiquitin‐specific proteases Zhu, Xiao; Ménard, Robert; Sulea, Traian 2007 2007-06-27 PMC N PMC7167984 17597129.0 10.1002/prot.21546 qm63owh6 0.387421 Ivarsson_2012, Choudhury_2017, Gorbalenya_1988, UNKNOWN_1987
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335 Zhao_2014 Structural Insights into 5' Flap DNA Unwinding and Incision by the Human FAN1 Dimer Zhao, Qi; Xue, Xiaoyu; Longerich, Simonne; Sung, Patrick; Xiong, Yong 2014 2014-12-11 None N PMC4268874 25500724.0 10.1038/ncomms6726 tznegx87 0.385001 Stork_2011, Tonzi_2018, Blank_2017, den_Boon_2010, Choudhury_2017 Rao_T_2018, Ziegler_2018, Deng_2019
336 Dang_2016 Characterization of Rv0888, a Novel Extracellular Nuclease from Mycobacterium tuberculosis Dang, Guanghui; Cao, Jun; Cui, Yingying; Song, Ningning; Chen, Liping; Pang, Hai; Liu, Siguo 2016 2016-01-08 COMM-USE N PMC4733049 26742696.0 10.1038/srep19033 hx7r6kaq 0.384924 Volmer_2010, Berkhout_2006, Kang_2009, Stork_2011, Haasnoot_2010 van_der_Linden_2014, Ren_X_2008, Orlik-Eisel_1990, Michalska_2018
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339 Lei_J_2018 Nsp3 of coronaviruses: Structures and functions of a large multi-domain protein Lei, Jian; Kusov, Yuri; Hilgenfeld, Rolf 2018 2018-01-31 PMC N PMC7113668 29128390.0 10.1016/j.antiviral.2017.11.001 ebaosne3 0.383667 Hao_W_2017, UNKNOWN_1987, Gorbalenya_1988, Volmer_2010, Chang_2005
340 García-Saura_2019 An uncharacterized FMAG_01619 protein from Fusobacterium mortiferum ATCC 9817 demonstrates that some bacterial macrodomains can also act as poly-ADP-ribosylhydrolases García-Saura, Antonio Ginés; Zapata-Pérez, Rubén; Hidalgo, José Francisco; Cabanes, Juana; Gil-Ortiz, Fernando; Sánchez-Ferrer, Álvaro 2019 2019-03-01 COMM-USE N PMC6397177 30824723.0 10.1038/s41598-019-39691-4 9eudz3kz 0.382181 Haasnoot_2010, Berkhout_2006, Taschuk_2020, Volmer_2010, Klein_2011 Rohrbeck_2016, Lu_Q_2012
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342 Han_Y_2009 Identification and functional characterization of regions that can be crosslinked to RNA in the helicase-like domain of BaMV replicase Han, Yu-Tsung; Hsu, Yau-Heiu; Lo, Chia-Wen; Meng, Menghsiao 2009 2009-07-05 PMC N PMC7134557 19443005.0 10.1016/j.virol.2009.04.013 k7ujru6t 0.381268 Stork_2011, Volmer_2010, Li_Z_2010, Kang_2009, den_Boon_2010 Someya_2008, Piñón_1997
343 Milani_2009 Flaviviral methyltransferase/RNA interaction: Structural basis for enzyme inhibition Milani, Mario; Mastrangelo, Eloise; Bollati, Michela; Selisko, Barbara; Decroly, Etienne; Bouvet, Mickaël; Canard, Bruno; Bolognesi, Martino 2009 2009-07-31 PMC N PMC7127253 19501254.0 10.1016/j.antiviral.2009.03.001 tf4jl47v 0.380894 Stork_2011, Pong_2011, Kang_2009, Meyerson_2017, Gorbalenya_1988 Noble_2014, Deng_2019, Sun_D_2016
344 Aik_W_2017 The N-terminal domains of FLASH and Lsm11 form a 2:1 heterotrimer for histone pre-mRNA 3’-end processing Aik, Wei Shen; Lin, Min-Han; Tan, Dazhi; Tripathy, Ashutosh; Marzluff, William F.; Dominski, Zbigniew; Chou, Chi-Yuan; Tong, Liang 2017 2017-10-11 COMM-USE N PMC5636114 29020104.0 10.1371/journal.pone.0186034 lg93okwg 0.380250 Blank_2017, Hou_L_2014, Ivanova_2015, Sato_2019 Scrima_2004
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346 Dzimianski_2019 Determining the molecular drivers of species-specific interferon-stimulated gene product 15 interactions with nairovirus ovarian tumor domain proteases Dzimianski, John V.; Scholte, Florine E. M.; Williams, Isabelle L.; Langley, Caroline; Freitas, Brendan T.; Spengler, Jessica R.; Bergeron, Éric; Pegan, Scott D. 2019 2019-12-23 COMM-USE N PMC6927636 31869347.0 10.1371/journal.pone.0226415 ge7skngl 0.378290 Rice_1992, Trobaugh_2017, Meyerson_2017, Wang_2018, Volmer_2010 Han_M_2014, Langley_2019
347 Morse_2015 Diversification of β-Augmentation Interactions between CDI Toxin/ Immunity Proteins Morse, Robert P.; Willett, Julia L.E.; Johnson, Parker M.; Zheng, Mandy; Credali, Alfredo; Iniguez, Angelina; Nowick, James S.; Hayes, Christopher S.; Goulding, Celia W. 2015 2015-11-01 PMC N PMC4658667 26449640.0 10.1016/j.jmb.2015.09.020 jxrdp06o 0.377746 Ivarsson_2012, Smith_2003, Gomis-Rüth_2003, Volmer_2010, UNKNOWN_1987 Michalska_2018, Li_W_2013, van_der_Linden_2014
348 Bhardwaj_2006 RNA Recognition and Cleavage by the SARS Coronavirus Endoribonuclease Bhardwaj, Kanchan; Sun, Jingchuan; Holzenburg, Andreas; Guarino, Linda A.; Kao, C. Cheng 2006 2006-08-11 PMC Y PMC7118729 16828802.0 10.1016/j.jmb.2006.06.021 3lwrlyto 0.377098 Stork_2011, Pong_2011, Gorbalenya_1988, Lin_X_2015, Yasuda-Inoue_2013
349 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 0.377098 Naito_2007, Ivarsson_2012, Qi_Z_2018, Chang_2011, Chan_2016 van_der_Linden_2014, Becker_2016, Wei_P_2006, Sun_D_2019
350 Lin_M_2014 Structural and functional characterization of MERS coronavirus papain-like protease Lin, Min-Han; Chuang, Shang-Ju; Chen, Chiao-Che; Cheng, Shu-Chun; Cheng, Kai-Wen; Lin, Chao-Hsiung; Sun, Chiao-Yin; Chou, Chi-Yuan 2014 2014-06-04 COMM-USE N PMC4051379 24898546.0 10.1186/1423-0127-21-54 fb04slz0 0.377098 Pong_2011, Li_C_2013, Volmer_2010, Lu_P_2016, Hao_W_2017 Niemeyer_2018, Yu_L_2017
351 Tang_2020 Helicase of Type 2 Porcine Reproductive and Respiratory Syndrome Virus Strain HV Reveals a Unique Structure Tang, Chenjun; Deng, Zengqin; Li, Xiaorong; Yang, Meiting; Tian, Zizi; Chen, Zhenhang; Wang, Guoguo; Wu, Wei; Feng, Wen-hai; Zhang, Gongyi; Chen, Zhongzhou 2020 2020-02-14 None N PMC7077220 32075207.0 10.3390/v12020215 i2dotk0k 0.376406 Pong_2011, Hao_W_2017, Gorbalenya_1988, Yasuda-Inoue_2013 Jiang_2017
352 Someya_2005 Characterization of the norovirus 3C-like protease Someya, Yuichi; Takeda, Naokazu; Miyamura, Tatsuo 2005 2005-06-30 PMC N PMC7114197 15845259.0 10.1016/j.virusres.2005.02.002 ij5yaqkx 0.375493 Yang_2010, Saura_1999, Vaughan_2012, Someya_2008 Someya_2008, Piñón_1997, van_der_Linden_2014
353 Shi_X_2013 The Zinc-Finger Domain Was Essential for Porcine Reproductive and Respiratory Syndrome Virus Nonstructural Protein-1α to Inhibit the Production of Interferon-β Shi, Xibao; Zhang, Xiaozhuan; Wang, Fangyu; Wang, Li; Qiao, Songlin; Guo, Junqing; Luo, Chunhui; Wan, Bo; Deng, Ruiguang; Zhang, Gaiping 2013 2013-06-01 PMC N PMC3665301 23428052.0 10.1089/jir.2012.0100 hl171olc 0.375448 Ban_J_2018, Smith_2003, UNKNOWN_1987, Volmer_2010, Kang_2009 Jiang_2017, Ma_Z_2013
354 Joshi_2017 The Rational Design of Therapeutic Peptides for Aminopeptidase N using a Substrate-Based Approach Joshi, Shilvi; Chen, Lang; Winter, Michael B.; Lin, Yi-Lun; Yang, Yang; Shapovalova, Mariya; Smith, Paige M.; Liu, Chang; Li, Fang; LeBeau, Aaron M. 2017 2017-05-02 COMM-USE N PMC5431086 28465619.0 10.1038/s41598-017-01542-5 0pmo3opx 0.374135 Ivarsson_2012, Choudhury_2017, Naito_2007, Smith_2003, Blank_2017 van_der_Linden_2014, Wei_P_2006, Akaji_2008
355 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 0.374135 Smith_2003, Sato_2019, Ivarsson_2012, UNKNOWN_1987, Pong_2011 Someya_2008, Zunszain_2010
356 Tan_W_2016 Structure of a Highly Active Cephalopod S-crystallin Mutant: New Molecular Evidence for Evolution from an Active Enzyme into Lens-Refractive Protein Tan, Wei-Hung; Cheng, Shu-Chun; Liu, Yu-Tung; Wu, Cheng-Guo; Lin, Min-Han; Chen, Chiao-Che; Lin, Chao-Hsiung; Chou, Chi-Yuan 2016 2016-08-08 COMM-USE N PMC4976375 27499004.0 10.1038/srep31176 7bmmcrox 0.373084 Choudhury_2017, Ivarsson_2012, Volmer_2010, Wang_2007, Dubois_2016 Someya_2008, Bielnicki_2005, Kanitz_2019
357 Wang_2015 The nonstructural protein 11 of porcine reproductive and respiratory syndrome virus inhibits NF-κB signaling by means of its deubiquitinating activity Wang, Dang; Fan, Jinxiu; Fang, Liurong; Luo, Rui; Ouyang, Haiping; Ouyang, Chao; Zhang, Huan; Chen, Huanchun; Li, Kui; Xiao, Shaobo 2015 2015-12-31 PMC N PMC7112538 26342881.0 10.1016/j.molimm.2015.08.011 s0ypy2hf 0.371886 Ban_J_2018, Meyerson_2017, Berkhout_2006, Volmer_2010, Yasuda-Inoue_2013 Jiang_2017, Ma_Z_2013
358 Durfee_2010 The ISG15 Conjugation System Broadly Targets Newly Synthesized Proteins: Implications for the Antiviral Function of ISG15 Durfee, Larissa A.; Lyon, Nancy; Seo, Kyungwoon; Huibregtse, Jon M. 2010 2010-06-11 None N PMC2887317 20542004.0 10.1016/j.molcel.2010.05.002 af90ievf 0.371226 Ban_J_2018, Meyerson_2017, Yasuda-Inoue_2013, Greene_2012, Choudhury_2017 Morales_2013, van_der_Linden_2014, Deng_2019
359 Wei_Z_2020 Aspartic acid at residue 185 modulates the capacity of HP-PRRSV nsp4 to antagonize IFN-I expression Wei, Ze-yu; Liu, Fang; Li, Yu; Wang, Hong-lei; Zhang, Zi-ding; Chen, Zhong-zhou; Feng, Wen-hai 2020 2020-04-21 PMC N 10.1016/j.virol.2020.04.007 dc09yj4t 0.371226 Yang_2010, Ban_J_2018, Freistadt_2007, Volmer_2010
360 Makrynitsa_2019 Conformational plasticity of the VEEV macro domain is important for binding of ADP-ribose Makrynitsa, Garyfallia I.; Ntonti, Dioni; Marousis, Konstantinos D.; Birkou, Maria; Matsoukas, Minos-Timotheos; Asami, Sam; Bentrop, Detlef; Papageorgiou, Nicolas; Canard, Bruno; Coutard, Bruno; Spyroulias, Georgios A. 2019 2019-04-01 PMC N PMC7111667 30825649.0 10.1016/j.jsb.2019.02.008 euf4sv76 0.369721 Pong_2011, Stork_2011, Volmer_2010, Gorbalenya_1988, den_Boon_2010 Hu_X_2016
361 Ghosh_2006 Progress in Anti-SARS Coronavirus Chemistry, Biology and Chemotherapy Ghosh, Arun K.; Xi, Kai; Johnson, Michael E.; Baker, Susan C.; Mesecar, Andrew D. 2006 2006-12-31 PMC N PMC2718771 19649165.0 10.1016/s0065-7743(06)41011-3 1wae0134 0.369531 Meyerson_2017, Li_C_2017, Stork_2011, Rice_1992, Kang_2009 Niemeyer_2018, van_der_Linden_2014, Zhu_L_2011, Yamamoto_2004
362 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 0.369071 Ivarsson_2012, UNKNOWN_1987, Smith_2003, Pong_2011, Gorbalenya_1988
363 Hilgenfeld_2014 From SARS to MERS: crystallographic studies on coronaviral proteases enable antiviral drug design Hilgenfeld, Rolf 2014 2014-08-11 PMC N PMC7163996 25039866.0 10.1111/febs.12936 ac6m1uwp 0.368292 Walker_2010, Wiwanitkit_2014, UNKNOWN_2010, Lu_P_2016, Fauci_2006
364 Bouvet_2010 In Vitro Reconstitution of SARS-Coronavirus mRNA Cap Methylation Bouvet, Mickaël; Debarnot, Claire; Imbert, Isabelle; Selisko, Barbara; Snijder, Eric J.; Canard, Bruno; Decroly, Etienne 2010 2010-04-22 COMM-USE N PMC2858705 20421945.0 10.1371/journal.ppat.1000863 4bripmvh 0.364641 Stork_2011, Yasuda-Inoue_2013, Pong_2011, Meyerson_2017, Kang_2009 Chen_2016
365 Chang_2012 Characterization and inhibition of norovirus proteases of genogroups I and II using a fluorescence resonance energy transfer assay Chang, Kyeong-Ok; Takahashi, Daisuke; Prakash, Om; Kim, Yunjeong 2012 2012-02-20 PMC N PMC3259199 22200497.0 10.1016/j.virol.2011.12.002 g1ie0ahz 0.363988 Tallmadge_2008, Ryu_W_2017, Lu_P_2016, Rice_1992, Crowe_2014 van_der_Linden_2014
366 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 0.362401 Yang_2010, Ivarsson_2012, Pong_2011, Yang_2012, Smith_2003 Grazioso_2012, Someya_2008, Kanitz_2019, Yin_J_2005
367 Tian_2011 Characterization of Selective Ubiquitin and Ubiquitin-Like Protease Inhibitors Using a Fluorescence-Based Multiplex Assay Format Tian, Xufan; Isamiddinova, Nigora S.; Peroutka, Raymond J.; Goldenberg, Seth J.; Mattern, Michael R.; Nicholson, Benjamin; Leach, Craig 2011 2011-04-01 PMC N PMC3065724 21133675.0 10.1089/adt.2010.0317 gf9c8vf3 0.361835 Choudhury_2017, Berkhout_2006, Blank_2017, Ivarsson_2012, Lindner_2007 Kramer_2012, van_der_Linden_2014
368 Damalanka_2016 Oxadiazole-Based Cell Permeable Macrocyclic Transition State Inhibitors of Norovirus 3CL Protease Damalanka, Vishnu C.; Kim, Yunjeong; Alliston, Kevin R.; Weerawarna, Pathum M.; Galasiti Kankanamalage, Anushka C.; Lushington, Gerald H.; Mehzabeen, Nurjahan; Battaile, Kevin P.; Lovell, Scott; Chang, Kyeong-Ok; Groutas, William C. 2016 2016-02-08 PMC N PMC5156532 26823007.0 10.1021/acs.jmedchem.5b01464 aycioxsc 0.361645 Tallmadge_2008, Brucker_2020, Lu_P_2016, Rice_1992, Potgieter_1986 Im_I_2009, Galasiti_Kankanamalage_2018, Kuo_C_2008
369 Artavanis‐Tsakonas_2006 Identification by functional proteomics of a deubiquitinating/deNeddylating enzyme in Plasmodium falciparum Artavanis‐Tsakonas, Katerina; Misaghi, Shahram; Comeaux, Christy A.; Catic, Andre; Spooner, Eric; Duraisingh, Manoj T.; Ploegh, Hidde L. 2006 2006-08-02 PMC N PMC7168409 16925553.0 10.1111/j.1365-2958.2006.05307.x 4wjuuage 0.360912 Choudhury_2017, Berkhout_2006, Taschuk_2020, Haasnoot_2010, Volmer_2010
370 Guo_X_2008 Cleavage mechanism of the H5N1 hemagglutinin by trypsin and furin Guo, X.-L.; Li, L.; Wei, D.-Q.; Zhu, Y.-S.; Chou, K.-C. 2008 2008-01-31 PMC N PMC7088033 18235997.0 10.1007/s00726-007-0611-3 o3co0l8u 0.360307 Volmer_2010, Pong_2011, Yang_2010, Yasui_2016, Hu_W_2013 van_der_Linden_2014, Someya_2008
371 Walter_2006 Lysine Methylation as a Routine Rescue Strategy for Protein Crystallization Walter, Thomas S.; Meier, Christoph; Assenberg, Rene; Au, Kin-Fai; Ren, Jingshan; Verma, Anil; Nettleship, Joanne E.; Owens, Raymond J.; Stuart, David I.; Grimes, Jonathan M. 2006 2006-11-30 PMC N PMC7126202 17098187.0 10.1016/j.str.2006.09.005 7ar7tzfn 0.359466 Kirillova_2009, Qi_Z_2018, Chang_2011, Liu_Z_2008, Dawson_2007 Renzi_2006, Someya_2008, Buller_2012
372 Shie_2005 Inhibition of the severe acute respiratory syndrome 3CL protease by peptidomimetic α,β-unsaturated esters Shie, Jiun-Jie; Fang, Jim-Min; Kuo, Tun-Hsun; Kuo, Chih-Jung; Liang, Po-Huang; Huang, Hung-Jyun; Wu, Yin-Ta; Jan, Jia-Tsrong; Cheng, Yih-Shyun E.; Wong, Chi-Huey 2005 2005-09-01 PMC N PMC7119063 15994085.0 10.1016/j.bmc.2005.05.065 9fiqf6lk 0.359112 Ramajayam_2010, Yang_2010, Vaughan_2012, Kuang_2005, Lu_Y_1997 Grazioso_2012, Kuo_C_2008, Akaji_2008, van_der_Linden_2014
373 Harrigan_2016 Monitoring Target Engagement of Deubiquitylating Enzymes Using Activity Probes: Past, Present, and Future Harrigan, Jeanine; Jacq, Xavier 2016 2016-09-10 PMC N PMC7120244 27613052.0 10.1007/978-1-4939-3756-1_26 01iom9al 0.358034 Berkhout_2006, Haasnoot_2010, Trobaugh_2017, Rytkönen_2007, Choudhury_2017 Deng_2019, Kramer_2012
374 Deng_2013 Structural basis for the regulatory function of a complex zinc-binding domain in a replicative arterivirus helicase resembling a nonsense-mediated mRNA decay helicase Deng, Zengqin; Lehmann, Kathleen C.; Li, Xiaorong; Feng, Chong; Wang, Guoqiang; Zhang, Qi; Qi, Xiaoxuan; Yu, Lin; Zhang, Xingliang; Feng, Wenhai; Wu, Wei; Gong, Peng; Tao, Ye; Posthuma, Clara C.; Snijder, Eric J.; Gorbalenya, Alexander E.; Chen, Zhongzhou 2013 2013-12-24 NONCOMM N PMC3950703 24369429.0 10.1093/nar/gkt1310 471zei5o 0.356853 Gorbalenya_1988, Yasuda-Inoue_2013, Pong_2011, Stork_2011, Hao_W_2017 Xia_H_2015, Kanitz_2019
375 Aeksiri_2017 Structural insights into type I and type II of nsp4 porcine reproductive and respiratory syndrome virus (nsp4 PRRSV) by molecular dynamics simulations Aeksiri, Niran; Jantafong, Tippawan 2017 2017-06-30 PMC N PMC7110526 28411461.0 10.1016/j.jmgm.2017.03.015 wsd30c6f 0.355960 Smith_2003, Yang_2012, Callison_1999, UNKNOWN_1987, Ivarsson_2012 Jiang_2017, Xu_L_2018
376 Edelmann_2008 Ubiquitin and ubiquitin-like specific proteases targeted by infectious pathogens: Emerging patterns and molecular principles Edelmann, Mariola J.; Kessler, Benedikt M. 2008 2008-12-31 PMC N PMC7126189 18817868.0 10.1016/j.bbadis.2008.08.010 3zwe6u8w 0.355496 Taschuk_2020, Berkhout_2006, Viswanathan_2010, Wilson_2012, Klein_2011 Wimmer_2015, Mielech_2014, Vigerust_2011
377 Antalis_2010 The Cutting Edge: Membrane Anchored Serine Protease Activities in the Pericellular Microenvironment Antalis, Toni M.; Buzza, Marguerite S.; Hodge, Kathryn M.; Hooper, John D.; Netzel-Arnett, Sarah 2010 2010-05-27 PMC N PMC3680374 20507279.0 10.1042/bj20100046 318vtzk0 0.355145 Donnelly_2011, Ivarsson_2012, Taschuk_2020, Bailey-Elkin_2017 Böttcher-Friebertshäuser_2018, Antalis_2011, Edwards_2008, Antalis_2016
378 Lyu_S_2019 Complete genome sequence and analysis of a new lethal arterivirus, Trionyx sinensis hemorrhagic syndrome virus (TSHSV), amplified from an infected Chinese softshell turtle Lyu, Sunjian; Yuan, Xuemei; Zhang, Haiqi; Shi, Weida; Hang, Xiaoying; Liu, Li; Cao, Zheng; Wu, Yinglei 2019 2019-07-03 PMC N PMC7087228 31270606.0 10.1007/s00705-019-04324-8 b105t23k 0.354912 Gorbalenya_1988, Firth_2009, Luytjes_1988, Lee_H_1991, Wurch_1991 Ren_X_2008
379 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 0.354671 Wang_2006, Polverino_2017, Qi_Z_2018, Saw_A_2019, Cheng_2013 Myllykoski_2017, Tremblay-Létourneau_2011
380 Zhang_2011 A novel immunity system for bacterial nucleic acid degrading toxins and its recruitment in various eukaryotic and DNA viral systems Zhang, Dapeng; Iyer, Lakshminarayan M.; Aravind, L. 2011 2011-02-08 NONCOMM N PMC3113570 21306995.0 10.1093/nar/gkr036 klsl1nzn 0.354430 Taschuk_2020, Choudhury_2017, Ivarsson_2012, Mushegian_2018, Gorbalenya_1988 Michalska_2018, van_der_Linden_2014, Gotte_2019
381 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 0.354121 Naito_2007, Callison_1999, Staple_2005, Pong_2011, Stewart_2016
382 Seneci_2015 Chapter 3 Targeting Proteasomal Degradation of Soluble, Misfolded Proteins Ubi Major… Seneci, Pierfausto 2015 2015-12-31 PMC N PMC7150093 10.1016/b978-0-12-801944-3.00003-5 to6v3cft 0.354121 Choudhury_2017, Ivarsson_2012, Taschuk_2020, Lindner_2007, Pridgeon_2008 Sato_2019, Benarroch_2019
383 Tan_Y_2018 Coronavirus infectious bronchitis virus non-structural proteins 8 and 12 form stable complex independent of the non-translated regions of viral RNA and other viral proteins Tan, Yong Wah; Fung, To Sing; Shen, Hongyuan; Huang, Mei; Liu, Ding Xiang 2018 2018-01-01 PMC N PMC7112110 29035788.0 10.1016/j.virol.2017.10.004 flw7eejq 0.353919 Yasuda-Inoue_2013, Stork_2011, Pong_2011, Meyerson_2017 Brockway_2005
384 Lin_C_2005 Anti-SARS coronavirus 3C-like protease effects of Isatis indigotica root and plant-derived phenolic compounds Lin, Cheng-Wen; Tsai, Fuu-Jen; Tsai, Chang-Hai; Lai, Chien-Chen; Wan, Lei; Ho, Tin-Yun; Hsieh, Chang-Chi; Chao, Pei-Dawn Lee 2005 2005-10-31 PMC N PMC7114321 16115693.0 10.1016/j.antiviral.2005.07.002 x0z68jos 0.353919 Lim_T_2015, Ramajayam_2010, McCutcheon_1995, Ryu_Y_2010 Nie_L_2020, Lin_C_2004, Chen_2005, Ho_T_2007
385 Neuvonen_2009 Differential Activities of Cellular and Viral Macro Domain Proteins in Binding of ADP-Ribose Metabolites Neuvonen, Maarit; Ahola, Tero 2009 2009-01-09 PMC N PMC7094737 18983849.0 10.1016/j.jmb.2008.10.045 z4d33odb 0.352820 Volmer_2010, Yasuda-Inoue_2013, Stork_2011, Kang_2009, Gorbalenya_1988 Zhang_2015
386 Aggarwal_2015 Kinetic characterization of trans-proteolytic activity of Chikungunya virus capsid protease and development of a FRET-based HTS assay Aggarwal, Megha; Sharma, Rajesh; Kumar, Pravindra; Parida, Manmohan; Tomar, Shailly 2015 2015-10-06 COMM-USE N PMC4593962 26439734.0 10.1038/srep14753 tt0fhp8c 0.351607 Tallmadge_2008, Rice_1992, Naito_2007, Kang_2009, Pong_2011 van_der_Linden_2014, Pastorino_2008, Saraswat_2020
387 Seidah_2006 Unexpected similarity between the cytosolic West Nile virus NS3 and the secretory furin-like serine proteinases Seidah, Nabil G. 2006 2006-01-15 PMC N PMC1360712 16371006.0 10.1042/bj20051787 i584s7y0 0.350471 Tallmadge_2008, Pong_2011, Ryu_W_2017, Meyerson_2017 Rozanov_1995, Mielech_2014
388 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 0.350269 Naito_2007, Berkhout_2006, Haasnoot_2010, Ivarsson_2012, Volmer_2010 Konno_2013, Zhu_L_2011, Liu_W_2014, Thanigaimalai_2013
389 Ke_M_2012 Short peptides derived from the interaction domain of SARS coronavirus nonstructural protein nsp10 can suppress the 2′-O-methyltransferase activity of nsp10/nsp16 complex Ke, Min; Chen, Yu; Wu, Andong; Sun, Ying; Su, Ceyang; Wu, Hao; Jin, Xu; Tao, Jiali; Wang, Yi; Ma, Xiao; Pan, Ji-An; Guo, Deyin 2012 2012-08-31 PMC N PMC7114426 22659295.0 10.1016/j.virusres.2012.05.017 z5109axc 0.349412 Ban_J_2018, Pong_2011, Meyerson_2017, Li_C_2013, Kang_2009 Kumar_2007
390 Huang_2016 NMR assignments of the macro domain from Middle East respiratory syndrome coronavirus (MERS-CoV) Huang, Yi-Ping; Cho, Chao-Cheng; Chang, Chi-Fon; Hsu, Chun-Hua 2016 2016-03-18 PMC N PMC7091117 26993639.0 10.1007/s12104-016-9676-9 qgklt8wa 0.348370 Hao_W_2017, Ivarsson_2012, UNKNOWN_1987, Volmer_2010 Hao_W_2017, Lei_J_2014
391 Kramer_2012 Detection of ubiquitin–proteasome enzymatic activities in cells: Application of activity-based probes to inhibitor development Kramer, Holger B.; Nicholson, Benjamin; Kessler, Benedikt M.; Altun, Mikael 2012 2012-11-30 PMC N PMC7125640 22613766.0 10.1016/j.bbamcr.2012.05.014 tq82srhn 0.347790 Choudhury_2017, Cox_E_2015, Ivarsson_2012, Berkhout_2006, Haasnoot_2010 van_der_Linden_2014, Tian_2011, Harrigan_2016
392 ZHANG_2018 Identification of the strain-specifically truncated nonstructural protein 10 of porcine reproductive and respiratory syndrome virus in infected cells ZHANG, Zhi-bang; XU, Lei; WEN, Xue-xia; DONG, Jian-guo; ZHOU, Lei; GE, Xin-na; YANG, Han-chun; GUO, Xin 2018 2018-05-31 PMC N PMC7128467 10.1016/s2095-3119(17)61896-3 ytkn0nhg 0.347743 Volmer_2010, Kang_2009, Ban_J_2018, Meyerson_2017, Brockway_2005 Jiang_2017
393 Park_2013 Dieckol, a SARS-CoV 3CLpro inhibitor, isolated from the edible brown algae Ecklonia cava Park, Ji-Young; Kim, Jang Hoon; Kwon, Jung Min; Kwon, Hyung-Jun; Jeong, Hyung Jae; Kim, Young Min; Kim, Doman; Lee, Woo Song; Ryu, Young Bae 2013 2013-07-01 PMC N PMC7126891 23647823.0 10.1016/j.bmc.2013.04.026 3uhjmocf 0.347596 Largo_2016, Choudhury_2011, Abou-Hamdan_2018, David_2013 Dude_2008, Ramajayam_2010, Konno_2017, Im_I_2009
394 Cooper_2018 10.17 Metabolism of Glutathione S-Conjugates: Multiple Pathways Cooper, A.J.L.; Hanigan, M.H. 2018 2018-12-31 PMC N 10.1016/b978-0-12-801238-3.01973-5 vf7h9zsc 0.347596 Tárnok_2020, Xu_W_2019, Kradin_2013, Ward_2011
395 Kliger_2008 Predicting proteolytic sites in extracellular proteins: only halfway there Kliger, Yossef; Gofer, Eyal; Wool, Assaf; Toporik, Amir; Apatoff, Avihay; Olshansky, Moshe 2008 2008-04-15 NONCOMM N PMC7109841 18321887.0 10.1093/bioinformatics/btn084 ol2du7ph 0.346906 Callison_1999, Francis_2016, Lee_C_2017, Wang_2007, Baranov_2009 Böttcher-Friebertshäuser_2018, Choo_2009, Tien_2017
396 Zhang_2004 Old drugs as lead compounds for a new disease? Binding analysis of SARS coronavirus main proteinase with HIV, psychotic and parasite drugs Zhang, Xue Wu; Yap, Yee Leng 2004 2004-05-15 PMC N PMC7126105 15110833.0 10.1016/j.bmc.2004.03.035 d4loia11 0.346874 Pong_2011, Tallmadge_2008, Naito_2007, Li_C_2014 Kao_R_2004, Zhang_2004, Yamamoto_2004, Adhikari_2017
397 Xue_Q_2018 Seneca Valley Virus 3C protease negatively regulates the type I interferon pathway by acting as a viral deubiquitinase Xue, Qiao; Liu, Huisheng; Zhu, Zixiang; Yang, Fan; Xue, Qinghong; Cai, Xuepeng; Liu, Xiangtao; Zheng, Haixue 2018 2018-12-31 PMC N PMC7111287 30408499.0 10.1016/j.antiviral.2018.10.028 sn5o3ugb 0.346442 Ban_J_2018, Meyerson_2017, Dixit_2013, Li_C_2017, Greene_2012
398 Vaughan_2012 RNA Binding by the NS3 Protease of the Hepatitis C Virus Vaughan, Robert; Li, Yi; Fan, Baochang; Ranjith-Kumar, C. T.; Kao, C. Cheng 2012 2012-10-01 PMC N PMC3467334 22814430.0 10.1016/j.virusres.2012.07.007 a3gyjndz 0.346144 Pong_2011, Stork_2011, Kang_2009, Yasuda-Inoue_2013, Meyerson_2017 Kou_Y_2006
399 Pager_2006 A mature and fusogenic form of the Nipah virus fusion protein requires proteolytic processing by cathepsin L Pager, Cara Theresia; Craft, Willie Warren; Patch, Jared; Dutch, Rebecca Ellis 2006 2006-03-15 PMC N PMC7111743 16460775.0 10.1016/j.virol.2006.01.007 xvmpmljp 0.345683 Diederich_2008, Tallmadge_2008, Greene_2012, Shi_S_2000 Diederich_2009, El_Najjar_2015, Weis_2015, Peisajovich_2000
400 Denison_1992 Intracellular processing of the N-terminal ORF 1a proteins of the coronavirus MHV-A59 requires multiple proteolytic events Denison, Mark R.; Zoltick, Philip W.; Hughes, Scott A.; Giangreco, Bernadette; Olson, Ann L.; Perlman, Stanley; Leibowitz, Julian L.; Weiss, Susan R. 1992 1992-07-31 PMC N PMC7130892 1318604.0 10.1016/0042-6822(92)90703-r u2jky7gl 0.345681 Yang_2010, Stork_2011, Chen_2015, UNKNOWN_1987, Volmer_2010 Piñón_1997, O'Connor_1999
401 Yang_2010 Enterovirus type 71 2A protease functions as a transcriptional activator in yeast Yang, Chee-Hing; Li, Hui-Chun; Jiang, Jeng-Geng; Hsu, Che-Fang; Wang, Yi-Jen; Lai, Meng-Jiun; Juang, Yue-Li; Lo, Shih-Yen 2010 2010-08-04 COMM-USE N PMC2923119 20682079.0 10.1186/1423-0127-17-65 ums99z8p 0.344618 Volmer_2010, Kang_2009, Ban_J_2018, Kumar_2016 van_der_Linden_2014, Someya_2008
402 Mucha_2010 Metallo-aminopeptidase inhibitors Mucha, Artur; Drag, Marcin; Dalton, John P.; Kafarski, Paweł 2010 2010-11-30 PMC N PMC7117057 20457213.0 10.1016/j.biochi.2010.04.026 do0px1gq 0.343389 Ivarsson_2012, Staple_2005, Taschuk_2020, Berkhout_2006, Haasnoot_2010 Myllykoski_2017, Joshi_2017, Pascual_2017
403 El_Ashry_1997 Acyclonucleosides: Part 2. diseco-Nucleosides* * Part 1 is in Volume 67 and Part 3 is in Volume 69. El Ashry, E.S.H.; El Kilany, Y. 1997 1997-12-31 PMC N PMC7112104 10.1016/s0065-2725(08)60360-8 hpe3d78m 0.343084 Lipsitch_2014, Mooney_2013, Murray_2017, Largo_2016, David_2013 Rachwal_2008, Hocková_2011, Yang_2008, Chopade_2016
404 Rodamilans_2018 Plant Viral Proteases: Beyond the Role of Peptide Cutters Rodamilans, Bernardo; Shan, Hongying; Pasin, Fabio; García, Juan Antonio 2018 2018-05-17 COMM-USE N PMC5967125 29868107.0 10.3389/fpls.2018.00666 lnt3e93i 0.341613 den_Boon_2010, Trobaugh_2017, Taschuk_2020, Rice_1992, Lloyd_2006 Sun_D_2016, Mielech_2014, van_der_Linden_2014
405 Fang_2010 The PRRSV replicase: Exploring the multifunctionality of an intriguing set of nonstructural proteins Fang, Ying; Snijder, Eric J. 2010 2010-12-31 PMC N PMC7114499 20696193.0 10.1016/j.virusres.2010.07.030 qm0jwl2x 0.337571 Rice_1992, den_Boon_2010, Yasuda-Inoue_2013, Ryu_W_2017, Stork_2011
406 Böttcher-Friebertshäuser_2018 Membrane-Anchored Serine Proteases: Host Cell Factors in Proteolytic Activation of Viral Glycoproteins Böttcher-Friebertshäuser, Eva 2018 2018-02-16 PMC N PMC7122464 10.1007/978-3-319-75474-1_8 8myzo7hg 0.337496 Yang_2010, Saura_1999, UNKNOWN_1987, Greene_2012, Donnelly_2011 Antalis_2011, Antalis_2010, El_Najjar_2015
407 Baek_2014 Deubiquitinating Enzymes as Novel Targets for Cancer Therapies Baek, Kwang-Hyun; Lim, Key-Hwan; Park, Jang-Joon 2014 2014-08-26 PMC N PMC7123001 10.1007/978-3-319-06752-0_15 38nm2us6 0.337357 Rytkönen_2007, Choudhury_2017, Berkhout_2006, Bailey-Elkin_2017 Jacomin_2018, Wang_2018
408 Deng_2018 An “Old” protein with a new story: Coronavirus endoribonuclease is important for evading host antiviral defenses Deng, Xufang; Baker, Susan C. 2018 2018-04-30 PMC N PMC5869138 29307596.0 10.1016/j.virol.2017.12.024 vox5xsgd 0.337357 Rice_1992, den_Boon_2010, Trobaugh_2017, Meyerson_2017, Berkhout_2006 Deng_2019
409 Gao_Y_2020 Structure of RNA-dependent RNA polymerase from 2019-nCoV, a major antiviral drug target Yan Gao; Liming Yan; Yucen Huang; Fengjiang Liu; Yao Zhao; Lin Cao; Tao Wang; Qianqian Sun; Zhenhua Ming; Lianqi Zhang; Ji Ge; Litao Zheng; Ying Zhang; Haofeng Wang; Yan Zhu; Chen Zhu; Tianyu Hu; Tian Hua; Bing Zhang; Xiuna Yang; Jun Li; Haitao Yang; Zhijie Liu; Wenqing Xu; Luke W. Guddat; Quan Wang; Zhiyong Lou; Zihe Rao 2020 2020-03-17 BioRxiv Y 10.1101/2020.03.16.993386 glfxrla9 0.336608 Stork_2011, Pong_2011, Meyerson_2017, Yasuda-Inoue_2013, Rice_1992
410 Brucz_2007 Expression, purification and characterization of recombinant severe acute respiratory syndrome coronavirus non-structural protein 1 Brucz, Kimberly; Miknis, Zachary J.; Schultz, L. Wayne; Umland, Timothy C. 2007 2007-04-30 None N PMC1862784 17187987.0 10.1016/j.pep.2006.11.005 fm83nr9o 0.336158 Rice_1992, Yasuda-Inoue_2013, Stork_2011, Meyerson_2017, Shi_S_2005 Kumar_2007, Wang_2009, Narayanan_2015
411 Ragno_2011 Identification of Small‐Molecule Inhibitors of the XendoU Endoribonucleases Family Ragno, Rino; Gioia, Ubaldo; Laneve, Pietro; Bozzoni, Irene; Mai, Antonello; Caffarelli, Elisa 2011 2011-07-29 PMC N PMC7162399 21805647.0 10.1002/cmdc.201100281 988ykg1m 0.335921 Haasnoot_2010, Taschuk_2020, Berkhout_2006, Trobaugh_2017, Klein_2011
412 Lan_D_2011 An improved nonchromatographic method for the purification of recombinant proteins using elastin-like polypeptide-tagged proteases Lan, Dongming; Huang, Guangrui; Shao, Hongwei; Zhang, Lichun; Ma, Lixin; Chen, Shangwu; Xu, Anlong 2011 2011-08-15 PMC N PMC7094418 21600185.0 10.1016/j.ab.2011.04.034 frauasts 0.333975 Raran-Kurussi_2016, Kuo_D_2011, Esposito_2005, UNKNOWN_1987 Raran-Kurussi_2016, Piñón_1997
413 Brandmann_2015 Crystal structure of the C-terminal 2’,5’-phosphodiesterase domain of group A rotavirus protein VP3 Brandmann, Tobias; Jinek, Martin 2015 2015-03-25 None N PMC5068548 25758703.0 10.1002/prot.24794 tt0n5d57 0.333821 Meyerson_2017, Ban_J_2018, Dixit_2013, Pong_2011, Kang_2009
414 Cox_E_2015 Identification of SUMO E3 Ligase-Specific Substrates Using the HuProt Human Proteome Microarray Cox, Eric; Uzoma, Ijeoma; Guzzo, Catherine; Jeong, Jun Seop; Matunis, Michael; Blackshaw, Seth; Zhu, Heng 2015 2015-01-01 PMC N PMC5882486 25820740.0 10.1007/978-1-4939-2550-6_32 g15gtag8 0.333802 Choudhury_2017, Lindner_2007, Hodul_2017, Blank_2017 Wimmer_2015, Catic_2007
415 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 0.333740 Smith_2003, Ivarsson_2012, Sato_2019, Blank_2017 Scrima_2004, Myllykoski_2017, Kanitz_2019, Buller_2012
416 Purbey_2006 pC6-2/caspase-6 system to purify glutathione-S-transferase-free recombinant fusion proteins expressed in Escherichia coli Purbey, Prabhat Kumar; Jayakumar, P Cyril; Patole, Milind S; Galande, Sanjeev 2006 2006-11-16 PMC N PMC7086577 17487164.0 10.1038/nprot.2006.310 l31wdsoy 0.333726 Kuo_D_2011, Esposito_2005, UNKNOWN_1987, Stork_2011 Rimstad_1995, Loa_C_2004, van_der_Linden_2014
417 Ehrnhoefer_2011 A Quantitative Method for the Specific Assessment of Caspase-6 Activity in Cell Culture Ehrnhoefer, Dagmar E.; Skotte, Niels H.; Savill, Jane; Nguyen, Yen T. N.; Ladha, Safia; Cao, Li-Ping; Dullaghan, Edie; Hayden, Michael R. 2011 2011-11-29 COMM-USE N PMC3226564 22140457.0 10.1371/journal.pone.0027680 73hw8922 0.333692 Berkhout_2006, Volmer_2010, Boggio_2006, Choudhury_2017 van_der_Linden_2014, Chen_2015, Alcalá-Canto_2006, Deiab_2013
418 Bacha_2008 Development of Broad-Spectrum Halomethyl Ketone Inhibitors Against Coronavirus Main Protease 3CL(pro) Bacha, Usman; Barrila, Jennifer; Gabelli, Sandra B.; Kiso, Yoshiaki; Amzel, L. Mario; Freire, Ernesto 2008 2008-07-01 PMC N PMC2597651 18611220.0 10.1111/j.1747-0285.2008.00679.x h451at18 0.333654 Naito_2007, Volmer_2010, Rice_1992, Berkhout_2006, Wang_2018 Niemeyer_2018, Lee_C_2019, Zhu_L_2011
419 Guy_J_2005 Identification of critical active‐site residues in angiotensin‐converting enzyme‐2 (ACE2) by site‐directed mutagenesis Guy, Jodie L.; Jackson, Richard M.; Jensen, Hanne A.; Hooper, Nigel M.; Turner, Anthony J. 2005 2005-07-19 PMC N PMC7164114 16008552.0 10.1111/j.1742-4658.2005.04756.x hext9jv8 0.333654 Smith_2003, Ivarsson_2012, Clarke_2012, Berkhout_2006, Choudhury_2017
420 Drinkwater_2017 M1 aminopeptidases as drug targets: broad applications or therapeutic niche? Drinkwater, Nyssa; Lee, Jisook; Yang, Wei; Malcolm, Tess R.; McGowan, Sheena 2017 2017-02-03 PMC N PMC7164018 28075056.0 10.1111/febs.14009 nmf5quab 0.331242 Haasnoot_2010, Berkhout_2006, Sztuba-Solinska_2019, Rytkönen_2007, Taschuk_2020
421 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 0.330938 Stork_2011, Blank_2017, Kang_2009, Pong_2011, Gorbalenya_1988 Picard-Jean_2013, Deng_2019
422 Scholte_2019 Stable Occupancy of the Crimean-Congo Hemorrhagic Fever Virus-Encoded Deubiquitinase Blocks Viral Infection Scholte, Florine E. M.; Hua, Brian L.; Spengler, Jessica R.; Dzimianski, John V.; Coleman-McCray, JoAnn D.; Welch, Stephen R.; McMullan, Laura K.; Nichol, Stuart T.; Pegan, Scott D.; Spiropoulou, Christina F.; Bergeron, Éric 2019 2019-07-23 PMC N PMC6650548 31337717.0 10.1128/mbio.01065-19 uhv28ji7 0.330938 Meyerson_2017, Rice_1992, Stork_2011, Ban_J_2018, Yasuda-Inoue_2013 Case_2017, Deng_2019
423 Chan_2015 One cannot rule them all: Are bacterial toxins-antitoxins druggable? Chan, Wai Ting; Balsa, Dolors; Espinosa, Manuel 2015 2015-03-21 NONCOMM N PMC4487406 25796610.0 10.1093/femsre/fuv002 68an60qu 0.330609 Berkhout_2006, Haasnoot_2010, Moon_2012, Abernathy_2015, Tessier_2019 Michalska_2018, Dang_2015, Gotte_2019, Singleton_2018
424 Mielech_2014 MERS-CoV papain-like protease has deISGylating and deubiquitinating activities Mielech, Anna M.; Kilianski, Andy; Baez-Santos, Yahira M.; Mesecar, Andrew D.; Baker, Susan C. 2014 2014-02-28 PMC N PMC3957432 24503068.0 10.1016/j.virol.2013.11.040 n9jnu2ah 0.330609 Ban_J_2018, Wang_2010, Dixit_2013, Meyerson_2017 Yu_L_2017, Mielech_2014
425 Anang_2016 Identification of critical residues in Hepatitis E virus macro domain involved in its interaction with viral methyltransferase and ORF3 proteins Anang, Saumya; Subramani, Chandru; Nair, Vidya P.; Kaul, Sheetal; Kaushik, Nidhi; Sharma, Chandresh; Tiwari, Ashutosh; Ranjith-Kumar, CT; Surjit, Milan 2016 2016-04-26 COMM-USE N PMC4844956 27113483.0 10.1038/srep25133 e3r0flt6 0.328731 Gorbalenya_1988, Kang_2009, Pong_2011, Yasuda-Inoue_2013, Luytjes_1988
426 Bütepage_2015 Intracellular Mono-ADP-Ribosylation in Signaling and Disease Bütepage, Mareike; Eckei, Laura; Verheugd, Patricia; Lüscher, Bernhard 2015 2015-09-25 COMM-USE N PMC4695847 26426055.0 10.3390/cells4040569 wjpc6zgq 0.328731 Rytkönen_2007, Taschuk_2020, Blank_2017, El_Motiam_2019, Bailey-Elkin_2017 Jankevicius_2013, Feijs_2020, Daniels_2015, Žaja_2012
427 Tang_2014 The identification and characterization of nucleic acid chaperone activity of human enterovirus 71 nonstructural protein 3AB Tang, Fenfen; Xia, Hongjie; Wang, Peipei; Yang, Jie; Zhao, Tianyong; Zhang, Qi; Hu, Yuanyang; Zhou, Xi 2014 2014-09-30 PMC N PMC7112070 25113906.0 10.1016/j.virol.2014.07.037 wefxs64p 0.328628 Stork_2011, Pong_2011, Yasuda-Inoue_2013, Meyerson_2017, Kang_2009 van_der_Linden_2014, Zhang_2015, Xia_H_2015
428 Zhong_2013 Ubiquitin-Specific Proteases 25 Negatively Regulates Virus-Induced Type I Interferon Signaling Zhong, Huijuan; Wang, Dang; Fang, Liurong; Zhang, Huan; Luo, Rui; Shang, Min; Ouyang, Chao; Ouyang, Haiping; Chen, Huanchun; Xiao, Shaobo 2013 2013-11-18 COMM-USE N PMC3832446 24260525.0 10.1371/journal.pone.0080976 h0sqs7dc 0.328521 Ban_J_2018, Blank_2017, Siu_Y_2008, Greene_2012 Zhang_2015, Xue_Q_2018
429 Daniels_2015 The Promise of Proteomics for the Study of ADP-Ribosylation Daniels, Casey M.; Ong, Shao-En; Leung, Anthony K.L. 2015 2015-06-18 None N PMC4486045 26091340.0 10.1016/j.molcel.2015.06.012 ssae2hnk 0.328521 Rytkönen_2007, Haasnoot_2010, Taschuk_2020, Boggio_2006, Berkhout_2006 Bütepage_2015, Jankevicius_2013, Feijs_2020
430 Krauss_2012 Increasing the X-ray Diffraction Power of Protein Crystals by Dehydration: The Case of Bovine Serum Albumin and a Survey of Literature Data Krauss, Irene Russo; Sica, Filomena; Mattia, Carlo Andrea; Merlino, Antonello 2012 2012-03-21 COMM-USE N PMC3317743 22489183.0 10.3390/ijms13033782 it5jde4j 0.328289 Qi_Z_2018, UNKNOWN_1987, Wu_G_2005, Song_2005, Khattari_2006 Ricagno_2006, Onohara_2006
431 Zhou_2017 Assessing activity of Hepatitis A virus 3C protease using a cyclized luciferase-based biosensor Zhou, Junwei; Wang, Dang; Xi, Yongqiang; Zhu, Xinyu; Yang, Yuting; Lv, Mengting; Luo, Chuanzhen; Chen, Jiyao; Ye, Xu; Fang, Liurong; Xiao, Shaobo 2017 2017-07-08 None N PMC7092888 28501618.0 10.1016/j.bbrc.2017.05.063 0afohen0 0.326907 Pong_2011, Kang_2009, Meyerson_2017, Stork_2011, Tallmadge_2008 van_der_Linden_2014, Saraswat_2020, Sun_D_2016, Deng_2019
432 Diederich_2009 Nipah virus fusion protein: Influence of cleavage site mutations on the cleavability by cathepsin L, trypsin and furin Diederich, Sandra; Dietzel, Erik; Maisner, Andrea 2009 2009-11-30 PMC N PMC7126315 19665506.0 10.1016/j.virusres.2009.07.020 v8cj6wf1 0.325142 Volmer_2010, Yang_2010, Meyerson_2017, Pong_2011 Weis_2015
433 Watson_2011 Robust substrate profiling method reveals striking differences in specificities of serum and lung fluid proteases Watson, Douglas S.; Jambunathan, Kalyani; Askew, David S.; Kodukula, Krishna; Galande, Amit K. 2011 2011-08-01 PMC N PMC3159512 21806553.0 10.2144/000113717 8wvd1qvf 0.323595 Naito_2007, Ivarsson_2012, Chan_2016, Antalis_2010 van_der_Linden_2014, Xue_G_2013, Chen_2015, Kuo_C_2004
434 Honke_2016 Multiple functions of USP18 Honke, Nadine; Shaabani, Namir; Zhang, Dong-Er; Hardt, Cornelia; Lang, Karl S 2016 2016-11-03 PMC N PMC5260889 27809302.0 10.1038/cddis.2016.326 4aeu9n5v 0.323159 Choudhury_2017, Berkhout_2006, Martín-Vicente_2017, Taschuk_2020, Haasnoot_2010 Basters_2018, Sato_2019
435 te_Velthuis_2011 The SARS-coronavirus nsp7+nsp8 complex is a unique multimeric RNA polymerase capable of both de novo initiation and primer extension te Velthuis, Aartjan J.W.; van den Worm, Sjoerd H. E.; Snijder, Eric J. 2011 2011-10-29 NONCOMM N PMC3287201 22039154.0 10.1093/nar/gkr893 tx0lqgff 0.323117 Stork_2011, Pong_2011, Kang_2009, Meyerson_2017, Yasuda-Inoue_2013 Ahn_D_2012, Subissi_2014
436 Xu_Y_2004 Crystallization and preliminary crystallographic analysis of the fusion core of the spike protein of the murine coronavirus mouse hepatitis virus (MHV) Xu, Yanhui; Bai, Zhihong; Qin, Lan; Li, Xu; Gao, George; Rao, Zihe 2004 2004-10-26 PMC N PMC7161579 15502312.0 10.1107/s0907444904020517 hrug9k84 0.322620 Zhao_2011, Jendrach_2014, Callison_1999, Willcocks_1993, Bastien_2003
437 Setz_2017 Inhibitors of Deubiquitinating Enzymes Block HIV-1 Replication and Augment the Presentation of Gag-Derived MHC-I Epitopes Setz, Christian; Friedrich, Melanie; Rauch, Pia; Fraedrich, Kirsten; Matthaei, Alina; Traxdorf, Maximilian; Schubert, Ulrich 2017 2017-08-12 COMM-USE N PMC5580479 28805676.0 10.3390/v9080222 mm83ml06 0.321928 Meyerson_2017, Ban_J_2018, Greene_2012, Yasuda-Inoue_2013, Berkhout_2006 Deng_2019, van_der_Linden_2014, Yu_L_2017
438 Kim_Y_2016 Consecutive Inhibition of ISG15 Expression and ISGylation by Cytomegalovirus Regulators Kim, Ye Ji; Kim, Eui Tae; Kim, Young-Eui; Lee, Myoung Kyu; Kwon, Ki Mun; Kim, Keun Il; Stamminger, Thomas; Ahn, Jin-Hyun 2016 2016-08-26 COMM-USE N PMC5001722 27564865.0 10.1371/journal.ppat.1005850 s8ddek2f 0.321641 Ban_J_2018, Meyerson_2017, Yasuda-Inoue_2013, Greene_2012, Li_C_2017 Yan_J_2020
439 Langley_2019 Structure of interferon-stimulated gene product 15 (ISG15) from the bat species Myotis davidii and the impact of interdomain ISG15 interactions on viral protein engagement Langley, Caroline; Goodwin, Octavia; Dzimianski, John V.; Daczkowski, Courtney M.; Pegan, Scott D. 2019 2019-01-01 PMC N PMC6333284 30644842.0 10.1107/s2059798318015322 py908dt8 0.321208 Berkhout_2006, Haasnoot_2010, Taschuk_2020, Trobaugh_2017, Herbert_2016
440 Hastie_2012 Structural Basis for the dsRNA Specificity of the Lassa Virus NP Exonuclease Hastie, Kathryn M.; King, Liam B.; Zandonatti, Michelle A.; Saphire, Erica Ollmann 2012 2012-08-28 COMM-USE N PMC3429428 22937163.0 10.1371/journal.pone.0044211 x5tlnv6i 0.320494 Stork_2011, Pong_2011, Meyerson_2017, Yasuda-Inoue_2013, den_Boon_2010 Case_2017, Hastie_2011
441 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 0.319955 Schlieker_2007, Smith_2003, Sato_2019, Wang_2014 Shimamoto_2015, Konno_2013, Pomeisl_2019, Thanigaimalai_2013
442 Kim_Y_2013 Potent inhibition of feline coronaviruses with peptidyl compounds targeting coronavirus 3C-like protease Kim, Yunjeong; Mandadapu, Sivakoteswara Rao; Groutas, William C.; Chang, Kyeong-Ok 2013 2013-02-28 None N PMC3563934 23219425.0 10.1016/j.antiviral.2012.11.005 5gt5r2uu 0.319237 Tallmadge_2008, Lu_P_2016, Ryu_W_2017, Crowe_2014, Yasui_2016 Hsieh_2010, Tekes_2016, Chen_2019
443 Fang_2013 Identification of two ATR-dependent phosphorylation sites on coronavirus nucleocapsid protein with nonessential functions in viral replication and infectivity in cultured cells Fang, Shouguo; Xu, Linghui; Huang, Mei; Qisheng Li, Frank; Liu, D.X. 2013 2013-09-30 PMC N PMC7111981 23849791.0 10.1016/j.virol.2013.06.014 7kwkla73 0.319072 Kumar_2016, Volmer_2010, Li_C_2013, Meyerson_2017, Kang_2009 Deng_2019
444 Ehmke_2011 Potent and Selective Inhibition of Cysteine Proteases from Plasmodium falciparum and Trypanosoma brucei Ehmke, Veronika; Heindl, Cornelia; Rottmann, Matthias; Freymond, Céline; Schweizer, W. Bernd; Brun, Reto; Stich, August; Schirmeister, Tanja; Diederich, François 2011 2011-02-07 None N PMC7162187 21275051.0 10.1002/cmdc.201000449 g14kt2dv 0.318990 Choudhury_2011, Abou-Hamdan_2018, David_2013, Largo_2016
445 Pasquato_2007 Heparin enhances the furin cleavage of HIV-1 gp160 peptides Pasquato, A.; Dettin, M.; Basak, A.; Gambaretto, R.; Tonin, L.; Seidah, N.G.; Di Bello, C. 2007 2007-12-22 PMC N PMC7125586 18037384.0 10.1016/j.febslet.2007.11.050 r7jt95ko 0.318720 Pong_2011, Stork_2011, Morikawa_1992, Hou_L_2014, UNKNOWN_1987 Cheng_2010, van_der_Linden_2014
446 Laporte_2017 Airway proteases: an emerging drug target for influenza and other respiratory virus infections Laporte, Manon; Naesens, Lieve 2017 2017-06-30 PMC N PMC7102789 28414992.0 10.1016/j.coviro.2017.03.018 3jda0k2u 0.318585 Compton_2014, Kumar_2016, Ban_J_2018, Tallmadge_2008 Van_der_Gucht_2017, van_der_Linden_2014, Sedeyn_2019
447 Littler_2020 Crystal structure of the SARS-CoV-2 non-structural protein 9, Nsp9 Dene Littler; Benjamin Gully; Rhys N Colson; Jamie Rossjohn 2020 2020-03-30 BioRxiv Y 10.1101/2020.03.28.013920 beoseizn 0.318505 Volmer_2010, Ivarsson_2012, Trobaugh_2017, UNKNOWN_1987, Gorbalenya_1988 Kumar_2007, Voß_D_2009, Guillén_2009
448 Karlberg_2013 Structural biology of the writers, readers, and erasers in mono- and poly(ADP-ribose) mediated signaling Karlberg, Tobias; Langelier, Marie-France; Pascal, John M.; Schüler, Herwig 2013 2013-12-31 None N PMC3726583 23458732.0 10.1016/j.mam.2013.02.002 9jkhnxa4 0.317257 Taschuk_2020, Rytkönen_2007, Dubois_2016, Trobaugh_2017 Bütepage_2015, Rack_2020, Jankevicius_2013, Hakmé_2008
449 Kang_2007 Biochemical and Genetic Analyses of Murine Hepatitis Virus Nsp15 Endoribonuclease Kang, Hyojeung; Bhardwaj, Kanchan; Li, Yi; Palaninathan, Satheesh; Sacchettini, James; Guarino, Linda; Leibowitz, Julian L.; Kao, C. Cheng 2007 2007-09-26 None N PMC2168834 17898055.0 10.1128/jvi.00547-07 8x6j2gdc 0.316680 Volmer_2010, Rice_1992, Stork_2011, Kang_2009, Meyerson_2017 Deng_2019
450 Kanjanahaluethai_2007 Membrane topology of murine coronavirus replicase nonstructural protein 3 Kanjanahaluethai, Amornrat; Chen, Zhongbin; Jukneliene, Dalia; Baker, Susan C. 2007 2007-05-10 PMC N PMC1925034 17222884.0 10.1016/j.virol.2006.12.009 us3dybue 0.316100 UNKNOWN_1987, UNKNOWN_1993, Pong_2011, Gomis-Rüth_2003 Voß_D_2009
451 Zhang_2015 Ubiquitin-specific Protease 15 Negatively Regulates Virus-induced Type I Interferon Signaling via Catalytically-dependent and -independent Mechanisms Zhang, Huan; Wang, Dang; Zhong, Huijuan; Luo, Rui; Shang, Min; Liu, Dezhi; Chen, Huanchun; Fang, Liurong; Xiao, Shaobo 2015 2015-06-10 COMM-USE N PMC4650652 26061460.0 10.1038/srep11220 h3btnnux 0.315673 Ban_J_2018, Blank_2017, Siu_Y_2008, Martín-Vicente_2017, Greene_2012 Zhong_2013
452 Al-Hakim_2010 The ubiquitous role of ubiquitin in the DNA damage response Al-Hakim, Abdallah; Escribano-Diaz, Cristina; Landry, Marie-Claude; O’Donnell, Lara; Panier, Stephanie; Szilard, Rachel K.; Durocher, Daniel 2010 2010-12-10 PMC N PMC7105183 21056014.0 10.1016/j.dnarep.2010.09.011 4rrqw18l 0.315552 Rytkönen_2007, Ghosh_2012, Shi_J_2012, Martín-Vicente_2017 Ghosh_2012, Jeon_2017, Calistri_2014
453 Worrall_2007 Information available at cut rates: structure and mechanism of ribonucleases Worrall, Jonathan AR; Luisi, Ben F 2007 2007-02-28 PMC N PMC7125677 17189683.0 10.1016/j.sbi.2006.12.001 x9q7dwc4 0.315469 Denison_2008, Taschuk_2020, Trobaugh_2017, Haasnoot_2010, Liu_Y_2009 Myllykoski_2017, Renzi_2006, Buller_2012, Ding_2012
454 Murphy_2010 Sequence–function analysis of the Sendai virus L protein domain VI Murphy, Andrea M.; Moerdyk-Schauwecker, Megan; Mushegian, Arcady; Grdzelishvili, Valery Z. 2010 2010-09-30 PMC N PMC2923248 20609457.0 10.1016/j.virol.2010.06.019 l5y3qkde 0.314328 Gorbalenya_1988, Stork_2011, Pong_2011, Kang_2009, Rice_1992 Masante_2015, Godeny_1990, Zhou_2011
455 Neer_1987 Genes for two homologous G-protein α subunits map to different human chromosomes Neer, Eva J.; Michel, Thomas; Eddy, Roger; Shows, Thomas; Seidman, J. G. 1987 1987-01-01 PMC N PMC7087866 2824334.0 10.1007/bf00284481 3ttlrmbx 0.313858 Krause_1987, Wang_2007, Callison_1999, UNKNOWN_1987, Gorbalenya_1988 UNKNOWN_1993, Nowak_1984
456 Dana_2020 A Review of Small Molecule Inhibitors and Functional Probes of Human Cathepsin L Dana, Dibyendu; Pathak, Sanjai K. 2020 2020-02-06 COMM-USE N PMC7038230 32041276.0 10.3390/molecules25030698 960trqex 0.313487 Berkhout_2006, Postigo_2009, Rytkönen_2007, Haasnoot_2010, Shi_J_2012 Gotte_2019, Vidal-Albalat_2016
457 Barry_2010 Poxvirus Exploitation of the Ubiquitin-Proteasome System Barry, Michele; van Buuren, Nicholas; Burles, Kristin; Mottet, Kelly; Wang, Qian; Teale, Alastair 2010 2010-10-19 COMM-USE N PMC3185573 21994622.0 10.3390/v2102356 zpyz1krq 0.305672 Taschuk_2020, Choudhury_2017, Bailey-Elkin_2017, Klein_2011 Si_X_2008, Bailey-Elkin_2017, Honke_2016
458 Zhao_2013 Interferon-induced ISG15 pathway: an ongoing virus–host battle Zhao, Chen; Collins, Mark N.; Hsiang, Tien-Ying; Krug, Robert M. 2013 2013-04-30 None N PMC3622817 23414970.0 10.1016/j.tim.2013.01.005 0yk1toxi 0.304849 Ban_J_2018, Meyerson_2017, Berkhout_2006, Volmer_2010, Rice_1992 Lenschow_2010, Morales_2013, Kim_Y_2016
459 Wlodawer_2003 A model of tripeptidyl-peptidase I (CLN2), a ubiquitous and highly conserved member of the sedolisin family of serine-carboxyl peptidases Wlodawer, Alexander; Durell, Stewart R; Li, Mi; Oyama, Hiroshi; Oda, Kohei; Dunn, Ben M 2003 2003-11-11 PMC N PMC280685 14609438.0 10.1186/1472-6807-3-8 5o38ihe0 0.303291 Wang_2007, Francis_2016, Volmer_2010, Dolja_2006, Baranov_2009 Basak_2009
460 Piñón_1997 Efficient Autoproteolytic Processing of the MHV-A59 3C-like Proteinase from the Flanking Hydrophobic Domains Requires Membranes Piñón, Josefina D.; Mayreddy, Ravi R.; Turner, Julie D.; Khan, Farah S.; Bonilla, Pedro J.; Weiss, Susan R. 1997 1997-04-14 PMC N PMC7130731 9143287.0 10.1006/viro.1997.8503 bv42mbnp 0.303059 UNKNOWN_1987, UNKNOWN_1993, Yang_2010, Chang_2000 Someya_2008
461 Guarino_2005 Mutational Analysis of the SARS Virus Nsp15 Endoribonuclease: Identification of Residues Affecting Hexamer Formation Guarino, Linda A.; Bhardwaj, Kanchan; Dong, Wen; Sun, Jingchuan; Holzenburg, Andreas; Kao, Cheng 2005 2005-11-11 PMC N PMC7094243 16216269.0 10.1016/j.jmb.2005.09.007 nyjfo0z6 0.302682 Stork_2011, Gomis-Rüth_2003, Pong_2011, UNKNOWN_1987, Diaz_2011 Someya_2008, Eshaghi_2005
462 Grum-Tokars_2008 Evaluating the 3C-like protease activity of SARS-Coronavirus: Recommendations for standardized assays for drug discovery Grum-Tokars, Valerie; Ratia, Kiira; Begaye, Adrian; Baker, Susan C.; Mesecar, Andrew D. 2008 2008-04-30 None N PMC4036818 17397958.0 10.1016/j.virusres.2007.02.015 qk36ujik 0.302387 Naito_2007, Pong_2011, Berkhout_2006, Stork_2011, Rice_1992 Adhikari_2017, Zhou_2011, Rut_W_2020, van_der_Linden_2014
463 Chng_2004 Synthetic studies towards anti-SARS agents: application of an indium-mediated allylation of α-aminoaldehydes as the key step towards an intermediate Chng, Shu-Sin; Hoang, Truong-Giang; Wayne Lee, Wei-Woon; Tham, Mun-Pun; Ling, Hui Yvonne; Loh, Teck-Peng 2004 2004-12-20 PMC N PMC7119068 10.1016/j.tetlet.2004.10.146 x8xntne7 0.301144 MacDonald_2012, Pong_2011, Stork_2011, Ramajayam_2010 Ramajayam_2010, Cho_A_2012, Lin_Z_2012, Grazioso_2012
464 Martina_2005 Screening of electrophilic compounds yields an aziridinyl peptide as new active-site directed SARS-CoV main protease inhibitor Martina, Erika; Stiefl, Nikolaus; Degel, Björn; Schulz, Franziska; Breuning, Alexander; Schiller, Markus; Vicik, Radim; Baumann, Knut; Ziebuhr, John; Schirmeister, Tanja 2005 2005-12-15 PMC N PMC7127417 16216498.0 10.1016/j.bmcl.2005.09.012 lij14ztt 0.300686 Naito_2007, Anderson_2009, Laporte_2017, Berkhout_2006, Lu_P_2016 Zhu_L_2011, Grazioso_2012, Pérez-Faginas_2011, Niu_C_2008
465 Vey_M_1992 Hemagglutinin activation of pathogenic avian influenza viruses of serotype H7 requires the protease recognition motif R-X-K/R-R Vey, Martin; Orlich, Michaela; Adler, Sabine; Klenk, Hans-Dieter; Rott, Rudolf; Garten, Wolfgang 1992 1992-05-31 PMC N 1566583.0 10.1016/0042-6822(92)90775-k g9qmmugg 0.300686 Tallmadge_2008, Yasui_2016, Volmer_2010, Yang_2010
466 Konno_2016 Design and synthesis of a series of serine derivatives as small molecule inhibitors of the SARS coronavirus 3CL protease Konno, Hiroyuki; Wakabayashi, Masaki; Takanuma, Daiki; Saito, Yota; Akaji, Kenichi 2016 2016-03-15 PMC N PMC7111485 26879854.0 10.1016/j.bmc.2016.01.052 9bw1z5ps 0.300571 Ramajayam_2010, Regnier_2009, Ramajayam_2010, Kuang_2005 Dude_2008, Im_I_2009, Ramajayam_2010, Chen_2005
467 García_1999 Proteinases Involved in Plant Virus Genome Expression García, Juan Antonio; Fernández-Fernández, María Rosario; López-Moya, Juan José 1999 1999-12-31 PMC N 10.1016/b978-012420510-9/50037-5 g72cq0ys 0.300343 Rice_1992, Trobaugh_2017, Berkhout_2006, Herbert_2016 van_der_Linden_2014, Rott_1987, Sun_D_2016