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Items: 1 to 20 of 60

1.
Systematic discovery of protein interaction interfaces using AlphaFold and experimental validation
Chop Yan Lee, Dalmira Hubrich, Julia K Varga, Christian Schäfer, Mareen Welzel, Eric Schumbera, Milena Djokic, Joelle M Strom, Jonas Schönfeld, Johanna L Geist, Feyza Polat, Toby J Gibson, Claudia Isabelle Keller Valsecchi, Manjeet Kumar, Ora Schueler-Furman, Katja Luck
Mol Syst Biol. 2024 Feb; 20(2): 75–97. Published online 2024 Jan 15. doi: 10.1038/s44320-023-00005-6
PMCID:
PMC10883280
AbstractArticlePDF–3.4M
2.
Allelic strengths of encephalopathy-associated UBA5 variants correlate between in vivo and in vitro assays
Xueyang Pan, Albert N Alvarez, Mengqi Ma, Shenzhao Lu, Michael W Crawford, Lauren C Briere, Oguz Kanca, Shinya Yamamoto, David A Sweetser, Jenny L Wilson, Ruth J Napier, Jonathan N Pruneda, Hugo J Bellen
eLife. 2023; 12: RP89891. Published online 2023 Dec 11. doi: 10.7554/eLife.89891
PMCID:
PMC10712953
AbstractArticlePDF–4.3M
3.
TRIM67 drives tumorigenesis in oligodendrogliomas through Rho GTPase-dependent membrane blebbing
Engin Demirdizen, Ruslan Al-Ali, Ashwin Narayanan, Xueyuan Sun, Julianna Patricia Varga, Bianca Steffl, Manuela Brom, Damir Krunic, Claudia Schmidt, Gabriele Schmidt, Felix Bestvater, Julian Taranda, Şevin Turcan
Neuro Oncol. 2023 Jun; 25(6): 1031–1043. Published online 2022 Nov 22. doi: 10.1093/neuonc/noac233
PMCID:
PMC10237422
AbstractArticlePDF–23M
4.
Viral protein engagement of GBF1 induces host cell vulnerability through synthetic lethality
Arti T. Navare, Fred D. Mast, Jean Paul Olivier, Thierry Bertomeu, Maxwell L. Neal, Lindsay N. Carpp, Alexis Kaushansky, Jasmin Coulombe-Huntington, Mike Tyers, John D. Aitchison
J Cell Biol. 2022 Nov 7; 221(11): e202011050. Published online 2022 Oct 28. doi: 10.1083/jcb.202011050
PMCID:
PMC9623979
AbstractArticlePDF–3.7M
5.
Scalable multiplex co-fractionation/mass spectrometry platform for accelerated protein interactome discovery
Pierre C. Havugimana, Raghuveera Kumar Goel, Sadhna Phanse, Ahmed Youssef, Dzmitry Padhorny, Sergei Kotelnikov, Dima Kozakov, Andrew Emili
Nat Commun. 2022; 13: 4043. Published online 2022 Jul 13. doi: 10.1038/s41467-022-31809-z
PMCID:
PMC9279285
AbstractArticlePDF–2.5M
6.
OpenCell: proteome-scale endogenous tagging enables the cartography of human cellular organization
Nathan H. Cho, Keith C. Cheveralls, Andreas-David Brunner, Kibeom Kim, André C. Michaelis, Preethi Raghavan, Hirofumi Kobayashi, Laura Savy, Jason Y. Li, Hera Canaj, James Y.S. Kim, Edna M. Stewart, Christian Gnann, Frank McCarthy, Joana P. Cabrera, Rachel M. Brunetti, Bryant B. Chhun, Greg Dingle, Marco Y. Hein, Bo Huang, Shalin B. Mehta, Jonathan S. Weissman, Rafael Gómez-Sjöberg, Daniel N. Itzhak, Loic A. Royer, Matthias Mann, Manuel D. Leonetti
Science. Author manuscript; available in PMC 2022 Sep 11.
Published in final edited form as: Science. 2022 Mar 11; 375(6585): eabi6983. Published online 2022 Mar 11. doi: 10.1126/science.abi6983
PMCID:
PMC9119736
AbstractArticlePDF–3.3M
7.
Structural basis for UFM1 transfer from UBA5 to UFC1
Manoj Kumar, Prasanth Padala, Jamal Fahoum, Fouad Hassouna, Tomer Tsaban, Guy Zoltsman, Sayanika Banerjee, Einav Cohen-Kfir, Moshe Dessau, Rina Rosenzweig, Michail N. Isupov, Ora Schueler-Furman, Reuven Wiener
Nat Commun. 2021; 12: 5708. Published online 2021 Sep 29. doi: 10.1038/s41467-021-25994-6
PMCID:
PMC8481289
AbstractArticlePDF–5.0M
8.
Integrative oncogene-dependency mapping identifies RIT1 vulnerabilities and synergies in lung cancer
Athea Vichas, Amanda K. Riley, Naomi T. Nkinsi, Shriya Kamlapurkar, Phoebe C. R. Parrish, April Lo, Fujiko Duke, Jennifer Chen, Iris Fung, Jacqueline Watson, Matthew Rees, Austin M. Gabel, James D. Thomas, Robert K. Bradley, John K. Lee, Emily M. Hatch, Marina K. Baine, Natasha Rekhtman, Marc Ladanyi, Federica Piccioni, Alice H. Berger
Nat Commun. 2021; 12: 4789. Published online 2021 Aug 9. doi: 10.1038/s41467-021-24841-y
PMCID:
PMC8352964
AbstractArticlePDF–4.5M
9.
A Concerted Action of UBA5 C-Terminal Unstructured Regions Is Important for Transfer of Activated UFM1 to UFC1
Nicole Wesch, Frank Löhr, Natalia Rogova, Volker Dötsch, Vladimir V. Rogov
Int J Mol Sci. 2021 Jul; 22(14): 7390. Published online 2021 Jul 9. doi: 10.3390/ijms22147390
PMCID:
PMC8304084
AbstractArticlePDF–6.2M
10.
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
AbstractArticlePDF–2.2M
11.
Acetylation of ELF5 suppresses breast cancer progression by promoting its degradation and targeting CCND1
Xiahui Li, Shujing Li, Bowen Li, Yanan Li, Sattout Aman, Kangkai Xia, Yuxi Yang, Bashir Ahmad, Huijian Wu
NPJ Precis Oncol. 2021; 5: 20. Published online 2021 Mar 19. doi: 10.1038/s41698-021-00158-3
PMCID:
PMC7979705
AbstractArticlePDF–6.8M
12.
UFMylation inhibits the proinflammatory capacity of interferon-γ–activated macrophages
Dale R. Balce, Ya-Ting Wang, Michael R. McAllaster, Bria F. Dunlap, Anthony Orvedahl, Barry L. Hykes, Jr, Lindsay Droit, Scott A. Handley, Craig B. Wilen, John G. Doench, Robert C. Orchard, Christina L. Stallings, Herbert W. Virgin
Proc Natl Acad Sci U S A. 2021 Jan 5; 118(1): e2011763118. Published online 2020 Dec 28. doi: 10.1073/pnas.2011763118
PMCID:
PMC7817147
AbstractArticlePDF–1.5M
13.
The Hsp70-Hsp90 co-chaperone Hop/Stip1 shifts the proteostatic balance from folding towards degradation
Kaushik Bhattacharya, Lorenz Weidenauer, Tania Morán Luengo, Ellis C. Pieters, Pablo C. Echeverría, Lilia Bernasconi, Diana Wider, Yashar Sadian, Margreet B. Koopman, Matthieu Villemin, Christoph Bauer, Stefan G. D. Rüdiger, Manfredo Quadroni, Didier Picard
Nat Commun. 2020; 11: 5975. Published online 2020 Nov 25. doi: 10.1038/s41467-020-19783-w
PMCID:
PMC7688965
AbstractArticlePDF–13M
14.
N‐Terminomics for the Identification of In Vitro Substrates and Cleavage Site Specificity of the SARS‐CoV‐2 Main Protease
Tomas Koudelka, Juliane Boger, Alessandra Henkel, Robert Schönherr, Stefanie Krantz, Sabine Fuchs, Estefanía Rodríguez, Lars Redecke, Andreas Tholey
Proteomics. 2021 Jan; 21(2): 2000246. Published online 2020 Nov 17. doi: 10.1002/pmic.202000246
PMCID:
PMC7645863
AbstractArticlePDF–497K
15.
Systematic mapping of genetic interactions for de novo fatty acid synthesis identifies C12orf49 as a regulator of lipid metabolism
Michael Aregger, Keith A. Lawson, Maximillian Billmann, Michael Costanzo, Amy H. Y. Tong, Katherine Chan, Mahfuzur Rahman, Kevin R. Brown, Catherine Ross, Matej Usaj, Lucy Nedyalkova, Olga Sizova, Andrea Habsid, Judy Pawling, Zhen-Yuan Lin, Hala Abdouni, Cassandra J. Wong, Alexander Weiss, Patricia Mero, James W. Dennis, Anne-Claude Gingras, Chad L. Myers, Brenda J. Andrews, Charles Boone, Jason Moffat
Nat Metab. Author manuscript; available in PMC 2020 Dec 1.
Published in final edited form as: Nat Metab. 2020 Jun; 2(6): 499–513. Published online 2020 Jun 1. doi: 10.1038/s42255-020-0211-z
PMCID:
PMC7566881
AbstractArticlePDF–4.8M
16.
Mutual regulation between OGT and XIAP to control colon cancer cell growth and invasion
Hyeon Gyu Seo, Han Byeol Kim, Ji Young Yoon, Tae Hyun Kweon, Yun Soo Park, Jingu Kang, Jinwoo Jung, SeongJin Son, Eugene C. Yi, Tae Ho Lee, Won Ho Yang, Jin Won Cho
Cell Death Dis. 2020 Sep; 11(9): 815. Published online 2020 Sep 29. doi: 10.1038/s41419-020-02999-5
PMCID:
PMC7525441
AbstractArticlePDF–3.7M
17.
Proteome-wide identification of HSP70/HSC70 chaperone clients in human cells
Seung W. Ryu, Rose Stewart, D. Chase Pectol, Nicolette A. Ender, Oshadi Wimalarathne, Ji-Hoon Lee, Carlos P. Zanini, Antony Harvey, Jon M. Huibregtse, Peter Mueller, Tanya T. Paull
PLoS Biol. 2020 Jul; 18(7): e3000606. Published online 2020 Jul 20. doi: 10.1371/journal.pbio.3000606
PMCID:
PMC7392334
AbstractArticlePDF–2.7M
18.
A Genome-wide ER-Phagy Screen Highlights Key Roles of Mitochondrial Metabolism and ER-Resident UFMylation
Jin Rui Liang, Emily Lingeman, Thao Luong, Saba Ahmed, Matthias Muhar, Truc Nguyen, James Olzmann, Jacob E. Corn
Cell. Author manuscript; available in PMC 2021 Mar 19.
Published in final edited form as: Cell. 2020 Mar 19; 180(6): 1160–1177.e20. Published online 2020 Mar 10. doi: 10.1016/j.cell.2020.02.017
PMCID:
PMC7197389
AbstractArticlePDF–3.2M
19.
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
AbstractArticlePDF–5.4M
20.
An atypical LIR motif within UBA5 (ubiquitin like modifier activating enzyme 5) interacts with GABARAP proteins and mediates membrane localization of UBA5
Jessica Huber, Miki Obata, Jens Gruber, Masato Akutsu, Frank Löhr, Natalia Rogova, Peter Güntert, Ivan Dikic, Vladimir Kirkin, Masaaki Komatsu, Volker Dötsch, Vladimir V. Rogov
Autophagy. 2020; 16(2): 256–270. Published online 2019 Apr 28. doi: 10.1080/15548627.2019.1606637
PMCID:
PMC6984602
AbstractArticlePDF–4.7M

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