Topic 05 -- Abstracts with Biological Entities (English) - 75 Topics / Sub-Topic Model 55 - 15 Topics

cite ad title authors publish year publish time dataset abstract mentions covid pmcid pubmed id doi cord uid topic weight Similarity scispacy Similarity specter
1 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 0.884342 Zhang_2015, Xue_Q_2018
2 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 0.783619 Zhong_2013
3 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 0.732488 van_der_Linden_2014
4 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 0.732032 Yu_L_2017, Deng_2019
5 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 0.720955
6 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 0.705425 Langley_2019
7 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 0.690653 Yan_J_2007 Durfee_2010, Jeon_2010
8 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 0.682556
9 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 0.678495 Mielech_2014, Yu_L_2017
10 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 0.676940
11 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 0.661605 Kim_Y_2016
12 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 0.596959 Jeon_2010, Catic_2007
13 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 0.592084 Yan_J_2007 Deng_2019, Kim_Y_2016
14 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 0.589125
15 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 0.583313 Yu_L_2017, Mielech_2014
16 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 0.566370 Yan_J_2007, Yang_2010, Sato_2019 Deng_2019, Yu_L_2017
17 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 0.564416
18 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 0.556611 van_der_Linden_2014, Deng_2019, Mielech_2014, Yu_L_2017
19 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 0.541372 Yan_J_2007 Basters_2017, Deng_2019, Catic_2007
20 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 0.522778 van_der_Linden_2014, Deng_2019
21 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 0.521805 Yan_J_2007 Deng_2019, Mielech_2014, Basters_2017
22 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 0.517042 Ma_Z_2013
23 Lindner_2007 Deubiquitination in virus infection Lindner, Holger A. 2007 2007-06-05 PMC N PMC7103280 17291557.0 10.1016/j.virol.2006.12.035 ogs4mq0v 0.508577
24 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 0.507804 Deng_2019, van_der_Linden_2014, Yu_L_2017
25 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 0.504118 Deng_2019
26 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 0.500065 Lindner_2007 Jeon_2010
27 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 0.487068 Yu_L_2017, Deng_2019, Mielech_2014, Mielech_2014
28 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 0.480387 Zhang_2011, Catic_2007
29 Woo_B_2019 Regulatory interplay between deubiquitinating enzymes and cytokines Woo, Bean; Baek, Kwang-Hyun 2019 2019-08-31 PMC N PMC7108389 31208841.0 10.1016/j.cytogfr.2019.06.001 lvm11o4r 0.470789 Deng_2019
30 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 0.469494 Yan_J_2007 Sato_2019, Catic_2007, Deng_2019, Li_H_2016
31 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 0.449108 Sato_2019, Yan_J_2007 Sato_2019, Flierman_2016
32 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 0.440654 Mielech_2014, Deng_2019
33 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 0.435949 Yu_L_2017, van_der_Linden_2014, Mielech_2014
34 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 0.434543 Someya_2008, Kanitz_2019, Lei_J_2014
35 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 0.426921 Yu_L_2017, Deng_2019
36 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 0.426477 Basters_2018, Sato_2019
37 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 0.418729 Yu_L_2017, Catic_2007, Mielech_2014
38 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 0.370502 Sato_2019 Sato_2019, Flierman_2016, Li_H_2016, Buller_2012
39 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 0.329564
40 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 0.327174 Sato_2019 Békés_2015, Sato_2019
41 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 0.318428 Yu_L_2017, Tsai_2010
42 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 0.317751 Lindner_2007 Catic_2007, Flierman_2016, Edelmann_2008