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13 results
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Catching a DUB in the act: novel ubiquitin-based active site directed probes.
Ekkebus R, Flierman D, Geurink PP, Ovaa H. Ekkebus R, et al. Curr Opin Chem Biol. 2014 Dec;23:63-70. doi: 10.1016/j.cbpa.2014.10.005. Curr Opin Chem Biol. 2014. PMID: 25461387 Free PMC article. Review.
On terminal alkynes that can react with active-site cysteine nucleophiles in proteases.
Ekkebus R, van Kasteren SI, Kulathu Y, Scholten A, Berlin I, Geurink PP, de Jong A, Goerdayal S, Neefjes J, Heck AJ, Komander D, Ovaa H. Ekkebus R, et al. J Am Chem Soc. 2013 Feb 27;135(8):2867-70. doi: 10.1021/ja309802n. Epub 2013 Feb 15. J Am Chem Soc. 2013. PMID: 23387960 Free PMC article.
Non-hydrolyzable Diubiquitin Probes Reveal Linkage-Specific Reactivity of Deubiquitylating Enzymes Mediated by S2 Pockets.
Flierman D, van der Heden van Noort GJ, Ekkebus R, Geurink PP, Mevissen TE, Hospenthal MK, Komander D, Ovaa H. Flierman D, et al. Among authors: ekkebus r. Cell Chem Biol. 2016 Apr 21;23(4):472-82. doi: 10.1016/j.chembiol.2016.03.009. Epub 2016 Apr 7. Cell Chem Biol. 2016. PMID: 27066941 Free PMC article.
Chemical synthesis of ubiquitin, ubiquitin-based probes, and diubiquitin.
El Oualid F, Merkx R, Ekkebus R, Hameed DS, Smit JJ, de Jong A, Hilkmann H, Sixma TK, Ovaa H. El Oualid F, et al. Among authors: ekkebus r. Angew Chem Int Ed Engl. 2010 Dec 27;49(52):10149-53. doi: 10.1002/anie.201005995. Angew Chem Int Ed Engl. 2010. PMID: 21117055 Free PMC article. No abstract available.
Kinetic analysis of multistep USP7 mechanism shows critical role for target protein in activity.
Kim RQ, Geurink PP, Mulder MPC, Fish A, Ekkebus R, El Oualid F, van Dijk WJ, van Dalen D, Ovaa H, van Ingen H, Sixma TK. Kim RQ, et al. Among authors: ekkebus r. Nat Commun. 2019 Jan 16;10(1):231. doi: 10.1038/s41467-018-08231-5. Nat Commun. 2019. PMID: 30651545 Free PMC article.
OTU deubiquitinases reveal mechanisms of linkage specificity and enable ubiquitin chain restriction analysis.
Mevissen TE, Hospenthal MK, Geurink PP, Elliott PR, Akutsu M, Arnaudo N, Ekkebus R, Kulathu Y, Wauer T, El Oualid F, Freund SM, Ovaa H, Komander D. Mevissen TE, et al. Among authors: ekkebus r. Cell. 2013 Jul 3;154(1):169-84. doi: 10.1016/j.cell.2013.05.046. Cell. 2013. PMID: 23827681 Free PMC article.
Dot1 promotes H2B ubiquitination by a methyltransferase-independent mechanism.
van Welsem T, Korthout T, Ekkebus R, Morais D, Molenaar TM, van Harten K, Poramba-Liyanage DW, Sun SM, Lenstra TL, Srivas R, Ideker T, Holstege FCP, van Attikum H, El Oualid F, Ovaa H, Stulemeijer IJE, Vlaming H, van Leeuwen F. van Welsem T, et al. Among authors: ekkebus r. Nucleic Acids Res. 2018 Nov 30;46(21):11251-11261. doi: 10.1093/nar/gky801. Nucleic Acids Res. 2018. PMID: 30203048 Free PMC article.
Recognition of Lys48-Linked Di-ubiquitin and Deubiquitinating Activities of the SARS Coronavirus Papain-like Protease.
Békés M, van der Heden van Noort GJ, Ekkebus R, Ovaa H, Huang TT, Lima CD. Békés M, et al. Among authors: ekkebus r. Mol Cell. 2016 May 19;62(4):572-85. doi: 10.1016/j.molcel.2016.04.016. Mol Cell. 2016. PMID: 27203180 Free PMC article.
Mechanism of UCH-L5 activation and inhibition by DEUBAD domains in RPN13 and INO80G.
Sahtoe DD, van Dijk WJ, El Oualid F, Ekkebus R, Ovaa H, Sixma TK. Sahtoe DD, et al. Among authors: ekkebus r. Mol Cell. 2015 Mar 5;57(5):887-900. doi: 10.1016/j.molcel.2014.12.039. Epub 2015 Feb 19. Mol Cell. 2015. PMID: 25702870 Free PMC article.
Altered peptide ligands revisited: vaccine design through chemically modified HLA-A2-restricted T cell epitopes.
Hoppes R, Oostvogels R, Luimstra JJ, Wals K, Toebes M, Bies L, Ekkebus R, Rijal P, Celie PH, Huang JH, Emmelot ME, Spaapen RM, Lokhorst H, Schumacher TN, Mutis T, Rodenko B, Ovaa H. Hoppes R, et al. Among authors: ekkebus r. J Immunol. 2014 Nov 15;193(10):4803-13. doi: 10.4049/jimmunol.1400800. Epub 2014 Oct 13. J Immunol. 2014. PMID: 25311806 Free PMC article.
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