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Jonathan N. Pruneda - Publications

Affiliations: 
2012 Biochemistry University of Washington, Seattle, Seattle, WA 
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35 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Bastidas RJ, Kędzior M, Davidson RK, Walsh SC, Dolat L, Sixt BS, Pruneda JN, Coers J, Valdivia RH. The acetylase activity of Cdu1 regulates bacterial exit from infected cells by protecting effectors from degradation. Elife. 12. PMID 38358795 DOI: 10.7554/eLife.87386  0.307
2023 Franklin TG, Brzovic PS, Pruneda JN. Bacterial ligases reveal fundamental principles of polyubiquitin specificity. Molecular Cell. 83: 4538-4554.e4. PMID 38091999 DOI: 10.1016/j.molcel.2023.11.017  0.435
2023 Roberts CG, Franklin TG, Pruneda JN. Ubiquitin-targeted bacterial effectors: rule breakers of the ubiquitin system. The Embo Journal. e114318. PMID 37555693 DOI: 10.15252/embj.2023114318  0.354
2023 Franklin TG, Brzovic PS, Pruneda JN. Bacterial mimicry of eukaryotic HECT ubiquitin ligation. Biorxiv : the Preprint Server For Biology. PMID 37333152 DOI: 10.1101/2023.06.05.543783  0.476
2023 Bastidas RJ, Kędzior M, Dolat L, Sixt BS, Pruneda JN, Valdivia RH. The acetylase activity of Cdu1 protects effectors from degradation to regulate bacterial exit from infected cells. Biorxiv : the Preprint Server For Biology. PMID 36909574 DOI: 10.1101/2023.02.28.530337  0.306
2022 Warren GD, Kitao T, Franklin TG, Nguyen JV, Geurink PP, Kubori T, Nagai H, Pruneda JN. Mechanism of Lys6 poly-ubiquitin specificity by the L. pneumophila deubiquitinase LotA. Molecular Cell. PMID 36538933 DOI: 10.1016/j.molcel.2022.11.022  0.344
2020 Schubert AF, Nguyen JV, Franklin TG, Geurink PP, Roberts CG, Sanderson DJ, Miller LN, Ovaa H, Hofmann K, Pruneda JN, Komander D. Identification and characterization of diverse OTU deubiquitinases in bacteria. The Embo Journal. e105127. PMID 32567101 DOI: 10.15252/Embj.2020105127  0.399
2020 Roberts CG, Pruneda JN. Unraveling proteasome engagement. Nature Chemical Biology. PMID 32541967 DOI: 10.1038/S41589-020-0573-2  0.392
2020 Alix E, Godlee C, Cerny O, Blundell S, Tocci R, Matthews S, Liu M, Pruneda JN, Swatek KN, Komander D, Sleap T, Holden DW. The Tumour Suppressor TMEM127 Is a Nedd4-Family E3 Ligase Adaptor Required by Salmonella SteD to Ubiquitinate and Degrade MHC Class II Molecules. Cell Host & Microbe. PMID 32526160 DOI: 10.1016/J.Chom.2020.04.024  0.45
2019 Franklin TG, Pruneda JN. A High-Throughput Assay for Monitoring Ubiquitination in Real Time. Frontiers in Chemistry. 7: 816. PMID 31867306 DOI: 10.3389/Fchem.2019.00816  0.505
2019 Swatek KN, Usher JL, Kueck AF, Gladkova C, Mevissen TET, Pruneda JN, Skern T, Komander D. Insights into ubiquitin chain architecture using Ub-clipping. Nature. PMID 31413367 DOI: 10.1038/S41586-019-1482-Y  0.46
2019 Damgaard RB, Pruneda JN. Legionella dismantles linear ubiquitin. Nature Microbiology. 4: 1244-1245. PMID 31337893 DOI: 10.1038/S41564-019-0515-5  0.384
2019 McDermott JE, Cort JR, Nakayasu ES, Pruneda JN, Overall C, Adkins JN. Prediction of bacterial E3 ubiquitin ligase effectors using reduced amino acid peptide fingerprinting. Peerj. 7: e7055. PMID 31211016 DOI: 10.7287/Peerj.Preprints.27292V1  0.462
2019 Pruneda JN, Komander D. Evaluating enzyme activities and structures of DUBs. Methods in Enzymology. 618: 321-341. PMID 30850058 DOI: 10.1016/Bs.Mie.2019.01.001  0.436
2018 Pruneda JN, Bastidas RJ, Bertsoulaki E, Swatek KN, Santhanam B, Clague MJ, Valdivia RH, Urbé S, Komander D. A Chlamydia effector combining deubiquitination and acetylation activities induces Golgi fragmentation. Nature Microbiology. PMID 30397340 DOI: 10.2210/Pdb6Gzt/Pdb  0.383
2018 Swatek KN, Aumayr M, Pruneda JN, Visser LJ, Berryman S, Kueck AF, Geurink PP, Ovaa H, van Kuppeveld FJM, Tuthill TJ, Skern T, Komander D. Irreversible inactivation of ISG15 by a viral leader protease enables alternative infection detection strategies. Proceedings of the National Academy of Sciences of the United States of America. PMID 29463763 DOI: 10.1073/Pnas.1710617115  0.329
2017 Gladkova C, Schubert AF, Wagstaff JL, Pruneda JN, Freund SMV, Komander D. An invisible ubiquitin conformation is required for efficient phosphorylation by PINK1. The Embo Journal. PMID 29133469 DOI: 10.15252/Embj.201797876  0.364
2016 Grabe GJ, Zhang Y, Przydacz M, Rolhion N, Yang Y, Pruneda JN, Komander D, Holden DW, Hare SA. The Salmonella Effector SpvD is a Cysteine Hydrolase with a Serovar-Specific Polymorphism Influencing Catalytic Activity, Suppression of Immune Responses and Bacterial Virulence. The Journal of Biological Chemistry. PMID 27789710 DOI: 10.1074/Jbc.M116.752782  0.423
2016 Pruneda JN, Durkin CH, Geurink PP, Ovaa H, Santhanam B, Holden DW, Komander D. The Molecular Basis for Ubiquitin and Ubiquitin-like Specificities in Bacterial Effector Proteases. Molecular Cell. PMID 27425412 DOI: 10.1016/J.Molcel.2016.06.015  0.518
2016 Mulder MP, Witting K, Berlin I, Pruneda JN, Wu KP, Chang JG, Merkx R, Bialas J, Groettrup M, Vertegaal AC, Schulman BA, Komander D, Neefjes J, El Oualid F, Ovaa H. A cascading activity-based probe sequentially targets E1-E2-E3 ubiquitin enzymes. Nature Chemical Biology. PMID 27182664 DOI: 10.1038/Nchembio.2084  0.625
2016 Geurink PP, van Tol BD, van Dalen D, Brundel PJ, Mevissen TE, Pruneda JN, Elliott PR, van Tilburg GB, Komander D, Ovaa H. Development of Diubiquitin-Based FRET Probes To Quantify Ubiquitin Linkage Specificity of Deubiquitinating Enzymes. Chembiochem : a European Journal of Chemical Biology. PMID 26996281 DOI: 10.1002/Cbic.201600017  0.392
2015 Michel MA, Elliott PR, Swatek KN, Simicek M, Pruneda JN, Wagstaff JL, Freund SM, Komander D. Assembly and specific recognition of k29- and k33-linked polyubiquitin. Molecular Cell. 58: 95-109. PMID 25752577 DOI: 10.1016/J.Molcel.2015.01.042  0.314
2015 Wauer T, Swatek KN, Wagstaff JL, Gladkova C, Pruneda JN, Michel MA, Gersch M, Johnson CM, Freund SM, Komander D. Ubiquitin Ser65 phosphorylation affects ubiquitin structure, chain assembly and hydrolysis. The Embo Journal. 34: 307-25. PMID 25527291 DOI: 10.15252/Embj.201489847  0.535
2015 DaRosa PA, Wang Z, Jiang X, Pruneda JN, Cong F, Klevit RE, Xu W. Allosteric activation of the RNF146 ubiquitin ligase by a poly(ADP-ribosyl)ation signal. Nature. 517: 223-6. PMID 25327252 DOI: 10.1038/Nature13826  0.669
2014 Pruneda JN, Smith FD, Daurie A, Swaney DL, Villén J, Scott JD, Stadnyk AW, Le Trong I, Stenkamp RE, Klevit RE, Rohde JR, Brzovic PS. E2~Ub conjugates regulate the kinase activity of Shigella effector OspG during pathogenesis. The Embo Journal. 33: 437-49. PMID 24446487 DOI: 10.1002/Embj.201386386  0.68
2014 Metzger MB, Pruneda JN, Klevit RE, Weissman AM. RING-type E3 ligases: master manipulators of E2 ubiquitin-conjugating enzymes and ubiquitination. Biochimica Et Biophysica Acta. 1843: 47-60. PMID 23747565 DOI: 10.1016/J.Bbamcr.2013.05.026  0.702
2014 DaRosa PA, Wang Z, Jiang X, Pruneda JN, Cong F, Klevit RE, Xu W. Allosteric activation of the RNF146 ubiquitin ligase by a poly(ADP-ribosyl)ation signal Nature. DOI: 10.1038/nature13826  0.534
2014 Metzger MB, Pruneda JN, Klevit RE, Weissman AM. RING-type E3 ligases: Master manipulators of E2 ubiquitin-conjugating enzymes and ubiquitination Biochimica Et Biophysica Acta - Molecular Cell Research. 1843: 47-60. DOI: 10.1016/j.bbamcr.2013.05.026  0.678
2013 Starita LM, Pruneda JN, Lo RS, Fowler DM, Kim HJ, Hiatt JB, Shendure J, Brzovic PS, Fields S, Klevit RE. Activity-enhancing mutations in an E3 ubiquitin ligase identified by high-throughput mutagenesis. Proceedings of the National Academy of Sciences of the United States of America. 110: E1263-72. PMID 23509263 DOI: 10.1073/Pnas.1303309110  0.686
2012 Pruneda JN, Littlefield PJ, Soss SE, Nordquist KA, Chazin WJ, Brzovic PS, Klevit RE. Structure of an E3:E2∼Ub Complex Reveals an Allosteric Mechanism Shared among RING/U-box Ligases Molecular Cell. 47: 933-942. PMID 22885007 DOI: 10.1016/J.Molcel.2012.07.001  0.693
2012 Page RC, Pruneda JN, Amick J, Klevit RE, Misra S. Structural insights into the conformation and oligomerization of e2∼ubiquitin conjugates Biochemistry. 51: 4175-4187. PMID 22551455 DOI: 10.1021/Bi300058M  0.709
2012 Juang YC, Landry MC, Sanches M, Vittal V, Leung CC, Ceccarelli DF, Mateo AR, Pruneda JN, Mao DY, Szilard RK, Orlicky S, Munro M, Brzovic PS, Klevit RE, Sicheri F, et al. OTUB1 co-opts Lys48-linked ubiquitin recognition to suppress E2 enzyme function. Molecular Cell. 45: 384-97. PMID 22325355 DOI: 10.1016/J.Molcel.2012.01.011  0.703
2012 Juang YC, Landry MC, Sanches M, Vittal V, Leung C, Ceccarelli DF, Mateo ARF, Pruneda JN, Mao D, Szilard RK, Orlicky S, Munro M, Brzovic PS, Klevit RE, Sicheri F, et al. OTUB1 Co-opts Lys48-Linked Ubiquitin Recognition to Suppress E2 Enzyme Function Molecular Cell. 46: 549. DOI: 10.1016/j.molcel.2012.05.013  0.65
2011 Korotkov KV, Johnson TL, Jobling MG, Pruneda J, Pardon E, Héroux A, Turley S, Steyaert J, Holmes RK, Sandkvist M, Hol WG. Structural and functional studies on the interaction of GspC and GspD in the type II secretion system. Plos Pathogens. 7: e1002228. PMID 21931548 DOI: 10.1371/Journal.Ppat.1002228  0.343
2011 Pruneda JN, Stoll KE, Bolton LJ, Brzovic PS, Klevit RE. Ubiquitin in motion: Structural studies of the ubiquitin-conjugating enzyme∼ubiquitin conjugate Biochemistry. 50: 1624-1633. PMID 21226485 DOI: 10.1021/Bi101913M  0.7
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