Dr. Nan Li

Associate Professor in iSynBio, SIAT




Address: 1068 Xueyuan Avenue, Shenzhen University Town, Nanshan, Shenzhen 518055, China


Research Areas

Chemical proteomics and quantitative proteomics


Dr. Nan Li obtained his bachelor degree of Chemical Biology from Xiamen University in 2007, and then went to Leiden University in the Netherlands to continue his study. He graduated with the PhD diploma in 2013, under the supervision of Professor Herman Overkleeft, focusing on the development and application of chemical proteomics methods.


At the beginning of 2014, Dr. Nan Li moved to EMBL Heidelberg in Germany to work on the interface of quantitative proteomics and cell biology as an EIPOD fellow for Jeroen Krijgsveld and Rainer Pepperkok, with the support from Marie Curie Action. Since November 2016, he has been working in iSynBio, SIAT, to start his own lab using proteomics to study Synthetic Biology. 


Spatiotemporal proteomics uncovers cathepsin-dependent macrophage cell death during Salmonella infection.

Selkrig J, Li N, Hausmann A, Mangan M, Zietek M, Mateus A, Bobonis J, Sueki A, Imamura H, Debs BE, Sigismondo G, Florea BI, Overkleeft HS, Kopitar-Jerala N, Turk B, Beltrao P, Savitski M, Latz E, Hardt W, Krijgsveld J*, Typas A*,

Nature Microbiology, 2020 Sep;5(9):1119-1133.


Capturing the interactome of newly transcribed RNA.

Bao X, Guo X, Yin M, Tariq M, Lai Y, Kanwal S, Zhou J, Li N, Lv Y, Pulido-Quetglas C, Wang X, Ji L, Khan MJ, Zhu X, Luo Z, Shao C, Lim DH, Liu X, Li N, Wang W, He M, Liu YL, Ward C, Wang T, Zhang G, Wang D, Yang J, Chen Y, Zhang C, Jauch R, Yang YG, Wang Y, Qin B, Anko ML, Hutchins AP, Sun H, Wang H, Fu XD, Zhang B, Esteban MA.

Nat Methods. 2018 Mar;15(3):213-220.


Proteasome inhibitor-adapted myeloma cells are largely independent from proteasome activity and show complex proteomic changes in particular in redox and energy metabolism.

Soriano GP, Besse L, Li N, Kraus M, Besse A, Meeuwenoord N, Bader J, Everts B, den Dulk H, Overkleeft HS, Florea BI, Driessen C.

Leukemia. 2016 Nov;30(11):2198-2207.


The novel 2-selective proteasome inhibitor LU-102 synergizes with bortezomib and carfilzomib to overcome proteasome inhibitor resistance of myeloma cells

Kraus M, Bader J, Geurink PP, Weyburne ES, Mirabella AC, Silzle T, Shabaneh TB, van der Linden WA, de Bruin G, Haile SR, van Rooden E, Appenzeller C, Li N, Kisselev AF, Overkleeft H, Driessen C.

Haematologica2015 Oct;100(10):1350-60.


In vitro and in vivo comparative and competitive activity-based protein profiling of GH29 a-L-fucosidases

Jiang J, Kallemeijn WW, Wright DW, van den Nieuwendijk AMCH, Rohde VC, Folch EC, van den Elst H, Florea BI, Scheij S, Donker-Koopman WE, Verhoek M, Li N, Schurmann M, Mink D, Boot RG, Codee JDC, van der Marel GA, Davies GJ, Aerts JMFG, Overkleeft HS

Chemical Science 2015 6(5):2782-2789.


Relative quantification of proteasome activity by activity-based protein profiling and LC-MS/MS.

Li N, Kuo CL, Paniagua G, van den Elst H, Verdoes M, Willems LI, van der Linden WA, Ruben M, van Genderen E, Gubbens J, van Wezel GP, Overkleeft HS and Florea BI.

Nat Protoc. 2013 Jun;8(6):1155-68.


The antimalarial natural product symplostatin 4 is a nanomolar inhibitor of the food vacuole falcipains.

Stolze SC, Deu E, Kaschani F, Li N, Florea BI, Richau KH, Colby T, van der Hoorn RA, Overkleeft HS, Bogyo M, Kaiser M.

Chem Biol. 2012 Dec 21;19(12):1546-55.


Peptido sulfonyl fluorides as new powerful proteasome inhibitors.

Brouwer AJ, Jonker A, Werkhoven P, Kuo E, Li N, Gallastegui N, Kemmink J, Florea BI, Groll M, Overkleeft HS, Liskamp RM.

J Med Chem. 2012 Dec 27;55(24):10995-1003.


Identification and isolation of lantibiotics from culture: a bioorthogonal chemistry approach.

Li J, Girard G, Florea BI, Geurink PP, Li N, van der Marel GA, Overhand M, Overkleeft HS, van Wezel GP.

Org Biomol Chem. 2012 Nov 21;10(43):8677-83.


Triple bioorthogonal ligation strategy for simultaneous labeling of multiple enzymatic activities.

Willems LI, Li N, Florea BI, Ruben M, van der Marel GA, Overkleeft HS.

AngewChemInt Ed Engl. 2012 Apr 27;51(18):4431-4.


Activity-based protein profiling: an enabling technology in chemical biology research.

Li N, Overkleeft HS, Florea BI.

CurrOpinChem Biol. 2012 Apr;16(1-2):227-33.


Discovery of a potent and highly β1 specific proteasome inhibitor from a focused library of urea-containing peptide vinyl sulfones and peptide epoxyketones.

van der Linden WA, Willems LI, Shabaneh TB, Li N, Ruben M, Florea BI, van der Marel GA, Kaiser M, Kisselev AF, Overkleeft HS.

Org Biomol Chem. 2012 Jan 7;10(1):181-94.


Bioorthogonal chemistry: applications in activity-based protein profiling.

Willems LI, van der Linden WA, Li N, Li KY, Liu N, Hoogendoorn S, van der Marel GA, Florea BI, Overkleeft HS.

Acc Chem Res. 2011 Sep 20;44(9):718-29.

Two-step bioorthogonal activity-based proteasome profiling using copper-free click reagents: a comparative study.

van der Linden WA, Li N, Hoogendoorn S, Ruben M, Verdoes M, Guo J, Boons GJ, van der Marel GA, Florea BI, Overkleeft HS.

Bioorg Med Chem. 2012 Jan 15;20(2):662-6.


The natural product hybrid of Syringolin A and Glidobactin A synergizes proteasome inhibition potency with subsite selectivity.

Clerc J, Li N, Krahn D, Groll M, Bachmann AS, Florea BI, Overkleeft HS, Kaiser M.

ChemCommun (Camb). 2011 Jan 7;47(1):385-7.


Activity-based profiling reveals reactivity of the murine thymoproteasome-specific subunit beta5t.

Florea BI, Verdoes M, Li N, van der Linden WA, Geurink PP, van den Elst H, Hofmann T, de Ru A, van Veelen PA, Tanaka K, Sasaki K, Murata S, den Dulk H, Brouwer J, Ossendorp FA, Kisselev AF, Overkleeft HS.

Chem Biol. 2010 Aug 27;17(8):795-801.


A cleavable linker based on the levulinoyl ester for activity-based protein profiling.

Geurink PP, Florea BI, Li N, Witte MD, Verasdonck J, Kuo CL, van der Marel GA, Overkleeft HS.

AngewChemInt Ed Engl. 2010 Sep 10;49(38):6802-5.



Activity-Based Proteasome Profiling in Medicinal Chemistry and Chemical Biology

de Bruin G, Li N, Paniagua G, Willems L, Xin BT, Verdoes M, Geurink P, van der Linden W, van der Stelt M, van der Marel G, Overkleeft H, Florea B

Concepts and Case Studies in Chemical Biology, 06/2014: pages 177-190, ISBN: 9783527336111

Research Interests

Applying chemical biology and proteomics methods to tackle a series of biological questions, such as: 1) inter-species interactions, e.g. pathogen and host, or human and gut microbiome; 2) mechanism of unconventional protein secretion in eukaryotic cells; 3) development of new methods for activity-based metaproteomics study. 

Honors & Distinctions

2008, Leiden University Fund Scholarship

2013, CSC-Chinese Government Award for Outstanding Self-Financed Students Aboard

2014, Marie Curie Cofund-EMBL Interdisciplinary Post-Doctoral Fellowship