Publications Dr. M.D. Witte


54. Wan, I. C. S., Witte, M. D., Minnaard, A. J. 2019 ‘From d- to l-Monosaccharide Derivatives via Photodecarboxylation-Alkylation’ Organic letters, vol. 21, no. 18, pp. 7669-7673 Web

53. Mishra, V. K., Buter, J., Blevins, M. S., Witte, M. D., van Rhijn, I., Moody, D. B., Brodbelt, J. S., Minnaard, A. J. 2019 ‘Total Synthesis of an Immunogenic Trehalose Phospholipid fromSalmonellaTyphi and Elucidation of Itssn-Regiochemistry by Mass Spectrometry’ Organic Letters, vol. 21, pp. 5126-5131 Web

52. van der Zouwen, A. J., Lohse, J., Wieske, L. H. E., Hohmann, K. F., van der Vlag, R., Witte, M. D. 2019 ‘An in situ combinatorial methodology to synthesize and screen chemical probes’ Chemical Communications, vol. 55, pp. 2050-2053 Web

51. Zhang, J., Eisink, N. N. H. M., Witte, M. D., Minnaard, A. J. 2019 ‘Regioselective Manipulation of GlcNAc Provides Allosamine, Lividosamine, and Related Compounds’ The Journal of Organic Chemistry, vol. 84, pp. 516-525 Web


50. Kuo, C-L., van Meel, E., Kytidou, K., Kallemeijn, W. W., Witte, M., Overkleeft, H. S., Artola, M. E., Aerts, J. M. 2018 ‘ Activity-Based Probes for Glycosidases: Profiling and Other Applications’ Methods in Enzymology, vol. 598, pp. 217-235  Web


49. Kallemeijn W. W., Scheij, S., Hoogendoorn, S., Witte, M. D., Chao, D.H.M., van Roomen, C. P. A. A., Ottenhoff, R., Overkleeft, H. S., Boot, R. G., Aerts, J. M. F. 2017 ‘Investigations on therapeutic glucocerebrosidases through paired detection with fluorescent activity-​based probes’ PLoS One, vol 12, no. 2, pp. 1-23. Web

48.  Lohse, J., Schindl, A., Danda, N., Williams, C. P., Kramer, K., Kuster, B., Witte, M. D., Medard, G. 2017 ‘Target and identify: triazene linker helps identify azidation sites of labelled proteins via click and cleave strategy’ Chemical Communications, vol 53, no.87, pp. 11929-11932. Web

47. Bdira, F. B., Kallemeijn, W. W., Oussoren, S. V., Scheij, S., Bleijlevens, B., Florea, B. I., van Roomen, C. P. A. A., Ottenhoff, R., van Kooten, M. J. F. M., Walvoort, M. T. C., Witte, M. D., Boot, R. G.,  Ubbink, M., Overkleeft, H. S., AertsJ. M. F. G. 2017 ‘Stabilization of Glucocerebrosidase by Active Site Occupancy’ ACS Chemical Biology, vol 12, no. 7, pp. 1830-1841. Web

46. Liu, Y., Stuart, M. C. A., Witte, M. D., Buhler, E., Hirsch, A. K. H. 2017 ‘Saccharide-Containing Dynamic Proteoids’ Chemistry European Journal, vol. 23, 16162-16166. Web

45. Lohse, J., Swier, L. J. Y. M., Oudshoorn, R. C., Medard, G., Kuster, B., Slotboom, D., Witte, M. D. 2017 ‘Targeted Diazotransfer Reagents Enable Selective Modification of Proteins with Azides’ Bioconjugate Chemistry, vol 28, no. 4, pp. 913-917. Web

44. Wan, I. C., Witte, M. D., Minnaard, A. J. 2017 ‘Site-​selective carbon-​carbon bond formation in unprotected monosaccharides using photoredox catalysis’ Chemical Communications, vol 53, no. 36, pp. 4926-4929. Web

43. Eisink, N.N.H.M., Minnaard, A.J., Witte, M.D. 2017 ‘Chemo – and Regioselective Oxidation of Secondary Alcohols in Vicinal Diols’ Synthesis, Accepted. Web

42. Dockerty, P., Edens, J.G., Tol, M.B., Morales Angeles, D., Domenech, A., Liu, Y., Hirsch, A.K.H., Veening, J.W., Scheffers, D.J. & Witte, M.D. 2017, ‘Bicyclic enol cyclocarbamates inhibit penicillin-binding proteins’ Organic & Biomolecular Chemistry. Accepted. Web

41. Eisink, N.N.H.M., Minnaard, A.J., Witte, M.D. 2017 ‘Regioselective Carbohydrate Oxidations: A Nuclear Magnetic Resonance (NMR) Study on Selectivity, Rate, and Side-Product Formation’ ACS Catalysis, vol 7, no. 2, pp. 1438-1445. Web

40. Claessen, J.H.L. & Witte, M.D. 2017, ‘A Protocol for Protein Profiling Using Chemoselective Cleavable Linker Probes in Semi-permeabilized Cells’ Methods in Molecular Biology, vol 1491, pp. 173-184.


39. Kallemeijn, W.W., Scheij, S., Voorn-Brouwer, T.M., Witte, M.D., Verhoek, M., Overkleeft, H.S., Boot, R.G. & Aerts, J.M.F.G. 2016, ‘Endo-β-Glucosidase Tag Allows Dual Detection of Fusion Proteins by Fluorescent Mechanism-Based Probes and Activity Measurement’ ChemBioChem, vol 17, no. 18, pp. 1698-1704. Web

38. Armenise, N., Tahiri, N., Eisink, N.N.H.M.,  Denis, M., Jäger, M., De Vries, J.G., Witte, M.D. & Minnaard, A.J. 2016, ‘Deuteration enhances catalyst lifetime in palladium-catalysed alcohol oxidation’ Chemical communications (Cambridge, England), vol 52, no. 10, pp. 2189-2191. Web

37. Jumde, V.R., Eisink, N.N.H.M., Witte, M.D. & Minnaard, A.J. 2016, ‘C-3 Epimerization of glucose, via regioselective oxidation and reduction’ Journal of Organic Chemistry, vol 52, no. 22, pp. 11439-11443. Web

36. Eisink, N.N.H.M., Lohse, J., Witte, M.D. & Minnaard, A.J. 2016, ‘Regioselective oxidation of unprotected 1,4 linked glucans’ Organic & Biomolecular Chemistry, vol 14, no. 21, pp. 4859-4864. Web


35. Witte, M.D., Wu, T., Guimaraes, C.P., Theile, C.S., Blom, A.E.M., Ingram, J.R., Li, Z., Kundrat, L., Goldberg, S.D. & Ploegh, H.L. 2015, ‘Site-specific protein modification using immobilized sortase in batch and continuous-flow systems’ Nature protocols, vol 10, no. 3, pp. 508-16. Web

34. Ourailidou, M.E., Dockerty, P., Witte, M., Poelarends, G.J. & Dekker, F.J. 2015, ‘Metabolic alkene labeling and in vitro detection of histone acylation via the aqueous oxidative Heck reaction’ Organic & Biomolecular Chemistry, vol 13, no. 12, pp. 3648-3653. Web


33. Kallemeijn, W.W., Witte, M.D., Voorn-Brouwer, T.M., Walvoort, M.T.C., Li, K.Y., Codee, J.D.C., van der Marel, G.A., Boot, R.G., Overkleeft, H.S. & Aerts, J.M.F.G. 2014, ‘A Sensitive Gel-based Method Combining Distinct Cyclophellitol-based Probes for the Identification of Acid/Base Residues in Human Retaining β-Glucosidases’ The Journal of Biological Chemistry, vol 289, no. 51, pp. 35351-35362. Web

32. Wagner, K., Kwakkenbos, M.J., Claassen, Y.B., Maijoor, K., Bohne, M., van der Sluijs, K.F., Witte, M.D., van Zoelen, D.J., Cornelissen, L.A., Beaumont, T., Bakker, A.Q., Ploegh, H.L. & Spits, H. 2014, ‘Bispecific antibody generated with sortase and click chemistry has broad antiinfluenza virus activity’ Proceedings of the National Academy of Science of the United States of America, vol 111, no. 47, pp. 16820-16825. Web

31. Li, K.Y., Jiang, J., Witte, M.D., Kallemeijn, W.W., Donker-Koopman, W.E., Boot, R.G., Aerts, J.M.F.G., Codee, J.D.C., van der Marel, G.A. & Overkleeft, H.S. 2014, ‘Exploring functional cyclophellitol analogues as human retaining beta-glucosidase inhibitors’ Organic & Biomolecular Chemistry, vol 12, no. 39, pp. 7786-7791. Web

30. Li, K.Y., Jiang, J., Witte, M.D., Kallemeijn, W.W., van den Elst, H., Wong, C.S., Chander, S.D., Hoogendoorn, S., Beenakker, T.J.M., Codee, J.D.C., Aerts, J.M.F.G., van der Marel, G.A. & Overkleeft, H.S. 2014, ‘Synthesis of Cyclophellitol, Cyclophellitol Aziridine, and Their Tagged Derivatives’ European Journal of Organic Chemistry, no. 27, pp. 6030-6043. Web

29. Willems, L.I., Jiang, J., Li, K.Y., Witte, M.D., Kallemeijn, W.W., Beenakker, T.J.N., Schroeder, S.P., Aerts, J.M.F.G., van der Marel, G.A., Codee, J.D.C. & Overkleeft, H.S. 2014, ‘From covalent glycosidase inhibitors to activity-based glycosidase probes’ Chemistry – A European Journal, vol 20, no. 35, pp. 10864-10872. Web

28. Witte, M. 2014, Rational Design of Activity-Based Retaining B-Exoglucosidase Probes. in H Waldmann & P Janning (eds), Concepts and Case Studies in Chemical Biology. Wiley, pp. 19-206.

27. Avalos, A.M., Bilate, A.M., Witte, M.D., Tai, A.K., He, J., Frushicheva, M.P., Thill, P.D., Meyer-Wentrup, F., Theile, C.S., Chakraborty, A.K., Zhuang, X. & Ploegh, H.L. 2014, ‘Monovalent engagement of the BCR activates ovalbumin-specific transnuclear B cells’ Journal of Experimental Medicine, vol 211, no. 2, pp. 365-379. Web

26. Kallemeijn, W.W., Witte, M.D., Wennekes, T. & Aerts, J.M.F.G. 2014, Mechanism-based inhibitors of glycosidases: design and applications. in D Horton (ed.), Advances in Carbohydrate Chemistry and Biochemistry. vol. 71, Advances in Carbohydrate Chemistry and Biochemistry, vol. 71, Academic Press, SAN DIEGO, pp. 297-338. DOI: 10.1016/B978-0-12-800128-8.00004-2


25. Witte, M.D., Theile, C.S., Wu, T., Guimaraes, C.P., Blom, A.E.M. & Ploegh, H.L. 2013, ‘Production of unnaturally linked chimeric proteins using a combination of sortase-catalyzed transpeptidation and click chemistry’ Nature protocols, vol 8, no. 9, pp. 1808-1819. Web

24. Guimaraes, C.P., Witte, M.D., Theile, C.S., Bozkurt, G., Kundrat, L., Blom, A.E.M. & Ploegh, H.L. 2013, ‘Site-specific C-terminal and internal loop labeling of proteins using sortase-mediated reactions’ Nature protocols, vol 8, no. 9, pp. 1787-1799. Web

23. Theile, C.S., Witte, M.D., Blom, A.E.M., Kundrat, L., Ploegh, H.L. & Guimaraes, C.P. 2013, ‘Site-specific N-terminal labeling of proteins using sortase-mediated reactions’ Nature protocols, vol 8, no. 9, pp. 1800-1807. Web

22. Strijbis, K., Tafesse, F.G., Fairn, G.D., Witte, M.D., Dougan, S.K., Watson, N., Spooner, E., Esteban, A., Vyas, V.K., Fink, G.R., Grinstein, S. & Ploegh, H.L. 2013, ‘Bruton’s Tyrosine Kinase (BTK) and Vav1 Contribute to Dectin1-Dependent Phagocytosis of Candida albicans in Macrophages’ PLoS Pathogens, vol 9, no. 6, 1003446. Web

21. Claessen, J.H.L., Witte, M.D., Yoder, N.C., Zhu, A.Y., Spooner, E. & Ploegh, H.L. 2013, ‘Catch-and-Release Probes Applied to Semi-Intact Cells Reveal Ubiquitin-Specific Protease Expression in Chlamydia trachomatis Infection’ ChemBioChem, vol 14, no. 3, pp. 343-352. Web


20. Kallemeijn, W.W., Li, K.Y., Witte, M.D., Marques, A.R.A., Aten, J., Scheij, S., Jiang, J., Willems, L.I., Voorn-Brouwer, T.M., Roomen, C.P.A.A.V., Ottenhoff, R., Boot, R.G., Elst, H.V.D., Walvoort, M.T.C., Florea, B.I., Codée, J.D.C., Marel, G.A.V.D., Aerts, J.M.F.G. & Overkleeft, H.S. 2012, ‘Novel Activity-Based Probes for Broad-Spectrum Profiling of Retaining β-Exoglucosidases In Situ and In Vivo’ Angewandte Chemie International Edition, vol 51, no. 50, pp. 12529-12533. Web

19. Witte, M.D., Cragnolini, J.J., Dougan, S.K., Yoder, N.C., Popp, M.W., Ploegh, H.L. & Petsko, G.A. (ed.) 2012, ‘Preparation of unnatural N-to-N and C-to-C protein fusions’ Proceedings of the National Academy of Sciences of the United States of America, vol 109, no. 30, pp. 11993-11998. Web

18. Nieuwendijk, A.M.C.H.V.D., Berg, R.J.B.H.N.V.D., Ruben, M., Witte, M.D., Brussee, J., Boot, R.G., Marel, G.A.V.D., Aerts, J.M.F.G. & Overkleeft, H.S. 2012, ‘Synthesis of Eight 1-Deoxynojirimycin Isomers from a Single Chiral Cyanohydrin’ European Journal of Organic Chemistry, vol 2012, no. 18, pp. 3437-3446. Web

17. Walvoort, M.T.C., Kallemeijn, W.W., Willems, L.I., Witte, M.D., Aerts, J.M.F.G., van der Marel, G.A., Codee, J.D.C. & Overkleeft, H.S. 2012, ‘Tuning the leaving group in 2-deoxy-2-fluoroglucoside results in improved activity-based retaining beta-glucosidase probes’ Chemical Communications, vol 48, no. 84, pp. 10386-10388. Web


16. Witte, M.D., Walvoort, M.T.C., Li, K.Y., Kallemeijn, W.W., Donker-Koopman, W.E., Boot, R.G., Aerts, J.M.F.G., Codee, J.D.C., van der Marel, G.A. & Overkleeft, H.S. 2011, ‘Activity-Based Profiling of Retaining beta-Glucosidases: A Comparative Study’ ChemBioChem, vol 12, no. 8, pp. 1263-1269. Web

15. Aerts, J.M.F.G., Kallemeijn, W.W., Wegdam, W., Ferraz, M.J., Breemen, M.J.V., Dekker, N., Kramer, G., Poorthuis, B.J., Groener, J.E.M., Cox-Brinkman, J., Rombach, S.M., Hollak, C.E.M., Linthorst, G.E., Witte, M.D., Gold, H., Marel, G.A.V.D., Overkleeft, H.S., Boot, R.G. & Wraith, E. (ed.) 2011, ‘Biomarkers in the diagnosis of lysosomal storage disorders: proteins, lipids, and inhibodies’ Journal of Inherited Metabolic Disease, vol 34, no. 3, pp. 605-619. Web

14. Witte, M.D., Marel, G.A.V.D., Aerts, J.M.F.G. & Overkleeft, H.S. 2011, ‘Irreversible inhibitors and activity-based probes as research tools in chemical glycobiology’ Organic & Biomolecular Chemistry, vol 9, no. 17, pp. 5908-5926. Web


13. Geurink, P.P., Florea, B.I., Li, N., Witte, M.D., Verasdonck, J., Kuo, C.L., Marel, G.A.V.D. & Overkleeft, H.S. 2010, ‘A Cleavable Linker Based on the Levulinoyl Ester for Activity-Based Protein Profiling’ Angewandte Chemie International Edition, vol 49, no. 38, pp. 6802-6805. Web

12. Witte, M.D., Kallemeijn, W.W., Aten, J., Li, K.Y., Strijland, A., Donker-Koopman, W.E., Nieuwendijk, A.M.C.H.V.D., Bleijlevens, B., Kramer, G., Florea, B.I., Hooibrink, B., Hollak, C.E.M., Ottenhoff, R., Boot, R.G., Marel, G.A.V.D., Overkleeft, H.S. & Aerts, J.M.F.G. 2010, ‘Ultrasensitive in situ visualization of active glucocerebrosidase molecules’ Nature Chemical Biology, vol 6, no. 12, pp. 907-913. Web


11. Witte, M.D., Florea, B.I., Verdoes, M., Adeyanju, O., Marel, G.A.V.D. & Overkleeft, H.S. 2009, ‘O-GlcNAc Peptide Epoxyketones Are Recognized by Mammalian Proteasomes’ Journal of the American Chemical Society, vol 131, no. 34, pp. 12064-12065. Web

10. Witte, M.D., Horst, D., Wiertz, E.J.H.J., Marel, G.A.V.D. & Overkleeft, H.S. 2009, ‘Synthesis and Biological Evaluation of a Chitobiose-Based Peptide N-Glycanase Inhibitor Library’ The Journal of Organic Chemistry, vol 74, no. 2, pp. 605-616. Web


9. Witte, M.D., Descals, C.V., Lavoir, S.V.P.D., Florea, B.I., Marel, G.A.V.D. & Overkleeft, H.S. 2007, ‘Bodipy-VAD-Fmk, a useful tool to study yeast peptide N-glycanase activity’ Organic & Biomolecular Chemistry, vol 5, no. 22, pp. 3690-3697. Web

8. Sexton, K.B., Witte, M.D., Blum, G. & Bogyo, M. 2007, ‘Design of cell-permeable, fluorescent activity-based probes for the lysosomal cysteine protease asparaginyl endopeptidase (AEP)/legumain’ Bioorganic & Medicinal Chemistry Letters, vol 17, no. 3, pp. 649-653. Web


7. Verdoes, M., Florea, B.I., Menendez-Benito, V., Maynard, C.J., Witte, M.D., Linden, W.A.V.D., Nieuwendijk, A.M.C.H.V.D., Hofmann, T., Berkers, C.R., Leeuwen, F.W.B.V., Groothuis, T.A., Leeuwenburgh, M.A., Ovaa, H., Neefjes, J.J., Filippov, D.V., Marel, G.A.V.D., Dantuma, N.P. & Overkleeft, H.S. 2006, ‘A Fluorescent Broad-Spectrum Proteasome Inhibitor for Labeling Proteasomes in vitro and in Vivo’ Chemistry & Biology, vol 13, no. 11, pp. 1217-1226. Web

6. Berger, A.B., Witte, M.D., Denault, J.B., Sadaghiani, A.M., Sexton, K.M.B., Salvesen, G.S. & Bogyo, M. 2006, ‘Identification of Early Intermediates of Caspase Activation Using Selective Inhibitors and Activity-Based Probes’ Molecular Cell, vol 23, no. 4, pp. 509-521. Web

5. Dinkelaar, J., Witte, M.D., Bos, L.J.V.D., Overkleeft, H.S. & Marel, G.A.V.D. 2006, ‘NIS/TFA: a general method for hydrolyzing thioglycosides’ Carbohydrate Research, vol 341, no. 10, pp. 1723-1729. Web

4. Verhelst, S.H.L., Witte, M.D., Arastu-Kapur, S., Fonovic, M. & Bogyo, M. 2006, ‘Novel Aza Peptide Inhibitors and Active-Site Probes of Papain-Family Cysteine Proteases’ ChemBioChem, vol 7, no. 6, pp. 943-950. Web

3. Risseeuw, M.D.P., Grotenbreg, G.M., Witte, M.D., Tuin, A.W., Leeuwenburgh, M.A., Marel, G.A.V.D., Overkleeft, H.S. & Overhand, M. 2006, ‘The Synthesis of cis- and trans-Fused Bicyclic Sugar Amino Acids’ European Journal of Organic Chemistry, vol 2006, no. 17, pp. 3877-3886. Web


2. Grotenbreg, G.M., Witte, M.D., Hooft, P.A.V.V., Spalburg, E., Reiß, P., Noort, D., Neeling, A.J.D., Koert, U., Marel, G.A.V.D., Overkleeft, H.S. & Overhand, M. 2005, ‘Synthesis and biological evaluation of gramicidin S dimers’ Organic & Biomolecular Chemistry, vol 3, no. 2, pp. 233-238. Web


1. Grotenbreg, G.M., Tuin, A.W., Witte, M.D., Leeuwenburgh, M.A., van Boom, J.H., van der Marel, G.A., Overkleeft, H.S. & Overhand, M. 2004, ‘An expeditious route towards pyranopyran sugar amino acids’ Synlett, no. 5, pp. 904-906. Web