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Select item 104258421.

Cryo‐EM structure of the chain‐elongating E3 ubiquitin ligase UBR5

Zuzana Hodáková, Irina Grishkovskaya, Hanna L Brunner, Derek L Bolhuis, Katarina Belačić, Alexander Schleiffer, Harald Kotisch, Nicholas G Brown, David Haselbach

EMBO J. 2023 Aug; 42(16): e113348. Published online 2023 Jul 6. doi: 10.15252/embj.2022113348

PMCID:: PMC10425842

Abstract Article PDF–3.0M

Select item 100339372.

Assessment of community efforts to advance network-based prediction of protein–protein interactions

Xu-Wen Wang, Lorenzo Madeddu, Kerstin Spirohn, Leonardo Martini, Adriano Fazzone, Luca Becchetti, Thomas P. Wytock, István A. Kovács, Olivér M. Balogh, Bettina Benczik, Mátyás Pétervári, Bence Ágg, Péter Ferdinandy, Loan Vulliard, Jörg Menche, Stefania Colonnese, Manuela Petti, Gaetano Scarano, Francesca Cuomo, Tong Hao, Florent Laval, Luc Willems, Jean-Claude Twizere, Marc Vidal, Michael A. Calderwood, Enrico Petrillo, Albert-László Barabási, Edwin K. Silverman, Joseph Loscalzo, Paola Velardi, Yang-Yu Liu

Nat Commun. 2023; 14: 1582. Published online 2023 Mar 22. doi: 10.1038/s41467-023-37079-7

PMCID:: PMC10033937

Abstract Article PDF–1.5M

Select item 98604963.

Elucidation of ubiquitin-conjugating enzymes that interact with RBR-type ubiquitin ligases using a liquid–liquid phase separation–based method

Ryota Hayashida, Reika Kikuchi, Kenichiro Imai, Waka Kojima, Tatsuya Yamada, Miho Iijima, Hiromi Sesaki, Keiji Tanaka, Noriyuki Matsuda, Koji Yamano

J Biol Chem. 2023 Feb; 299(2): 102822. Published online 2022 Dec 21. doi: 10.1016/j.jbc.2022.102822

PMCID:: PMC9860496

Abstract Article PDF–6.6M

Select item 97320514.

Divergent self-association properties of paralogous proteins TRIM2 and TRIM3 regulate their E3 ligase activity

Diego Esposito, Jane Dudley-Fraser, Acely Garza-Garcia, Katrin Rittinger

Nat Commun. 2022; 13: 7583. Published online 2022 Dec 8. doi: 10.1038/s41467-022-35300-7

PMCID:: PMC9732051

Abstract Article PDF–4.5M

Select item 90341015.

Enzymatic analysis of WWP2 E3 ubiquitin ligase using protein microarrays identifies autophagy-related substrates

Hanjie Jiang, Claire Y. Chiang, Zan Chen, Sara Nathan, Gabriel D’Agostino, Joao A. Paulo, Guang Song, Heng Zhu, Sandra B. Gabelli, Philip A. Cole

J Biol Chem. 2022 May; 298(5): 101854. Published online 2022 Mar 21. doi: 10.1016/j.jbc.2022.101854

PMCID:: PMC9034101

Abstract Article PDF–3.7M

Select item 88970226.

Histone deacetylase inhibitors inhibit cervical cancer growth through Parkin acetylation-mediated mitophagy

Xin Sun, Yuhan Shu, Guiqin Ye, Caixia Wu, Mengting Xu, Ruilan Gao, Dongsheng Huang, Jianbin Zhang

Acta Pharm Sin B. 2022 Feb; 12(2): 838–852. Published online 2021 Jul 21. doi: 10.1016/j.apsb.2021.07.003

PMCID:: PMC8897022

Abstract Article PDF–3.0M

Select item 83310927.

Reconstitution of human CMG helicase ubiquitylation by CUL2^LRR1 and multiple E2 enzymes

Thanh Thi Le, Johanna Ainsworth, Cristian Polo Rivera, Thomas Macartney, Karim P.M. Labib

Biochem J. 2021 Jul 30; 478(14): 2825–2842. Prepublished online 2021 Jun 29. Published online 2021 Jul 23. doi: 10.1042/BCJ20210315

PMCID:: PMC8331092

Abstract Article PDF–1.9M

Select item 81650308.

Dual Proteome-scale Networks Reveal Cell-specific Remodeling of the Human Interactome

Edward L. Huttlin, Raphael J. Bruckner, Jose Navarrete-Perea, Joe R. Cannon, Kurt Baltier, Fana Gebreab, Melanie P. Gygi, Alexandra Thornock, Gabriela Zarraga, Stanley Tam, John Szpyt, Brandon M. Gassaway, Alexandra Panov, Hannah Parzen, Sipei Fu, Arvene Golbazi, Eila Maenpaa, Keegan Stricker, Sanjukta Guha Thakurta, Tian Zhang, Ramin Rad, Joshua Pan, David P. Nusinow, Joao A. Paulo, Devin K. Schweppe, Laura Pontano Vaites, J. Wade Harper, Steven P. Gygi

Cell. Author manuscript; available in PMC 2022 May 27.

Published in final edited form as: Cell. 2021 May 27; 184(11): 3022–3040.e28. Published online 2021 May 6. doi: 10.1016/j.cell.2021.04.011

PMCID:: PMC8165030

Abstract Article PDF–2.2M

Select item 71699839.

A reference map of the human binary protein interactome

Katja Luck, Dae-Kyum Kim, Luke Lambourne, Kerstin Spirohn, Bridget E. Begg, Wenting Bian, Ruth Brignall, Tiziana Cafarelli, Francisco J. Campos-Laborie, Benoit Charloteaux, Dongsic Choi, Atina G. Coté, Meaghan Daley, Steven Deimling, Alice Desbuleux, Amélie Dricot, Marinella Gebbia, Madeleine F. Hardy, Nishka Kishore, Jennifer J. Knapp, István A. Kovács, Irma Lemmens, Miles W. Mee, Joseph C. Mellor, Carl Pollis, Carles Pons, Aaron D. Richardson, Sadie Schlabach, Bridget Teeking, Anupama Yadav, Mariana Babor, Dawit Balcha, Omer Basha, Christian Bowman-Colin, Suet-Feung Chin, Soon Gang Choi, Claudia Colabella, Georges Coppin, Cassandra D’Amata, David De Ridder, Steffi De Rouck, Miquel Duran-Frigola, Hanane Ennajdaoui, Florian Goebels, Liana Goehring, Anjali Gopal, Ghazal Haddad, Elodie Hatchi, Mohamed Helmy, Yves Jacob, Yoseph Kassa, Serena Landini, Roujia Li, Natascha van Lieshout, Andrew MacWilliams, Dylan Markey, Joseph N. Paulson, Sudharshan Rangarajan, John Rasla, Ashyad Rayhan, Thomas Rolland, Adriana San-Miguel, Yun Shen, Dayag Sheykhkarimli, Gloria M. Sheynkman, Eyal Simonovsky, Murat Taşan, Alexander Tejeda, Vincent Tropepe, Jean-Claude Twizere, Yang Wang, Robert J. Weatheritt, Jochen Weile, Yu Xia, Xinping Yang, Esti Yeger-Lotem, Quan Zhong, Patrick Aloy, Gary D. Bader, Javier De Las Rivas, Suzanne Gaudet, Tong Hao, Janusz Rak, Jan Tavernier, David E. Hill, Marc Vidal, Frederick P. Roth, Michael A. Calderwood

Nature. Author manuscript; available in PMC 2020 Oct 8.

Published in final edited form as: Nature. 2020 Apr; 580(7803): 402–408. Published online 2020 Apr 8. doi: 10.1038/s41586-020-2188-x

PMCID:: PMC7169983

Abstract Article PDF–5.4M

Select item 674264610.

Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations

Robert Fragoza, Jishnu Das, Shayne D. Wierbowski, Jin Liang, Tina N. Tran, Siqi Liang, Juan F. Beltran, Christen A. Rivera-Erick, Kaixiong Ye, Ting-Yi Wang, Li Yao, Matthew Mort, Peter D. Stenson, David N. Cooper, Xiaomu Wei, Alon Keinan, John C. Schimenti, Andrew G. Clark, Haiyuan Yu

Nat Commun. 2019; 10: 4141. Published online 2019 Sep 12. doi: 10.1038/s41467-019-11959-3

PMCID:: PMC6742646

Abstract Article PDF–1.2M

Select item 646855011.

Analysis of the Zn-Binding Domains of TRIM32, the E3 Ubiquitin Ligase Mutated in Limb Girdle Muscular Dystrophy 2H

Elisa Lazzari, Medhat S. El-Halawany, Matteo De March, Floriana Valentino, Francesco Cantatore, Chiara Migliore, Silvia Onesti, Germana Meroni

Cells. 2019 Mar; 8(3): 254. Published online 2019 Mar 16. doi: 10.3390/cells8030254

PMCID:: PMC6468550

Abstract Article PDF–5.1M

Select item 616234612.

The MALDI-TOF E2/E3 Ligase Assay as Universal Tool for Drug Discovery in the Ubiquitin Pathway

Virginia De Cesare, Clare Johnson, Victoria Barlow, James Hastie, Axel Knebel, Matthias Trost

Cell Chem Biol. 2018 Sep 20; 25(9): 1117–1127.e4. doi: 10.1016/j.chembiol.2018.06.004

PMCID:: PMC6162346

Abstract Article

Select item 608604013.

Real-time tracking of complex ubiquitination cascades using a fluorescent confocal on-bead assay

Joanna Koszela, Nhan T. Pham, David Evans, Stefan Mann, Irene Perez-Pi, Steven Shave, Derek F. J. Ceccarelli, Frank Sicheri, Mike Tyers, Manfred Auer

BMC Biol. 2018; 16: 88. Published online 2018 Aug 10. doi: 10.1186/s12915-018-0554-z

PMCID:: PMC6086040

Abstract Article PDF–1.4M

Select item 565626714.

Ubiquitination of STING at lysine 224 controls IRF3 activation

Guoxin Ni, Hiroyasu Konno, Glen N. Barber

Sci Immunol. Author manuscript; available in PMC 2017 Oct 25.

Published in final edited form as: Sci Immunol. 2017 May 5; 2(11): eaah7119. doi: 10.1126/sciimmunol.aah7119

PMCID:: PMC5656267

Abstract Article PDF–2.2M

Select item 563866015.

Structure and catalytic activation of the TRIM23 RING E3 ubiquitin ligase

Daria M. Dawidziak, Jacint G. Sanchez, Jonathan M. Wagner, Barbie K. Ganser-Pornillos, Owen Pornillos

Proteins. Author manuscript; available in PMC 2018 Oct 1.

Published in final edited form as: Proteins. 2017 Oct; 85(10): 1957–1961. Published online 2017 Jul 24. doi: 10.1002/prot.25348

PMCID:: PMC5638660

Abstract Article PDF–881K

Select item 563060016.

Mammalian APE1 controls miRNA processing and its interactome is linked to cancer RNA metabolism

Giulia Antoniali, Fabrizio Serra, Lisa Lirussi, Mikiei Tanaka, Chiara D’Ambrosio, Shiheng Zhang, Slobodanka Radovic, Emiliano Dalla, Yari Ciani, Andrea Scaloni, Mengxia Li, Silvano Piazza, Gianluca Tell

Nat Commun. 2017; 8: 797. Published online 2017 Oct 6. doi: 10.1038/s41467-017-00842-8

PMCID:: PMC5630600

Abstract Article PDF–2.3M

Select item 559214017.

Osmotic and Heat Stress-dependent Regulation of MLK4β and MLK3 by the CHIP E3 Ligase in Ovarian Cancer Cells

Natalya A. Blessing, Srimathi Kasturirangan, Evan M. Zink, April L. Schroyer, Deborah N. Chadee

Cell Signal. Author manuscript; available in PMC 2018 Nov 1.

Published in final edited form as: Cell Signal. 2017 Nov; 39: 66–73. Published online 2017 Jul 28. doi: 10.1016/j.cellsig.2017.07.021

PMCID:: PMC5592140

Abstract Article PDF–1.0M

Select item 553161118.

Architecture of the human interactome defines protein communities and disease networks

Edward L. Huttlin, Raphael J. Bruckner, Joao A. Paulo, Joe R. Cannon, Lily Ting, Kurt Baltier, Greg Colby, Fana Gebreab, Melanie P. Gygi, Hannah Parzen, John Szpyt, Stanley Tam, Gabriela Zarraga, Laura Pontano-Vaites, Sharan Swarup, Anne E. White, Devin K. Schweppe, Ramin Rad, Brian K. Erickson, Robert A. Obar, K.G. Guruharsha, Kejie Li, Spyros Artavanis-Tsakonas, Steven P. Gygi, J. Wade Harper

Nature. Author manuscript; available in PMC 2017 Nov 17.

Published in final edited form as: Nature. 2017 May 25; 545(7655): 505–509. Published online 2017 May 17. doi: 10.1038/nature22366

PMCID:: PMC5531611

Abstract Article PDF–2.7M

Select item 510887219.

A cascading activity-based probe sequentially targets E1–E2–E3 ubiquitin enzymes

Monique P.C. Mulder, Katharina Witting, Ilana Berlin, Jonathan N. Pruneda, Kuen-Phon Wu, Jer-Gung Chang, Remco Merkx, Johanna Bialas, Marcus Groettrup, Alfred C.O. Vertegaal, Brenda A. Schulman, David Komander, Jacques Neefjes, Farid El Oualid, Huib Ovaa

Nat Chem Biol. Author manuscript; available in PMC 2017 Jan 1.

Published in final edited form as: Nat Chem Biol. 2016 Jul; 12(7): 523–530. Published online 2016 May 16. doi: 10.1038/nchembio.2084

PMCID:: PMC5108872

Abstract Article PDF–2.4M

Select item 496747820.

Synthesis of Isomeric Phosphoubiquitin Chains Reveals that Phosphorylation Controls Deubiquitinase Activity and Specificity

Nicolas Huguenin-Dezot, Virginia De Cesare, Julien Peltier, Axel Knebel, Yosua Adi Kristaryianto, Daniel T. Rogerson, Yogesh Kulathu, Matthias Trost, Jason W. Chin

Cell Rep. 2016 Jul 26; 16(4): 1180–1193. Published online 2016 Jul 14. doi: 10.1016/j.celrep.2016.06.064

PMCID:: PMC4967478

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