EMBL Heidelberg, Meyerhofstraße 1, 69117 Heidelberg, Germany

Phone: +49 6221 387-8536


  • PhD, Max Planck Institute for Biophysical Chemistry, Göttingen.
    Research Associate, the Scripps Research Institute, USA.
    Group leader at EMBL since 2009.
    Joint appointment with Cell Biology and Biophysics Unit.
    Emmy Noether group leader since 2010.
    ERC Investigator since 2015.


Total: 63 publication(s)


Gupta K, Watson AA, Baptista T, Scheer E, Chambers AL, Koehler C, Zou J, Obong-Ebong I, Kandiah E, Temblador A, Round A, Forest E, Man P, Bieniossek C, Laue ED, Lemke EA, Rappsilber J, Robinson CV, Devys D, Tora L, Berger I. (2017)

Architecture of TAF11/TAF13/TBP complex suggests novel regulation properties of general transcription factor TFIID.

Elife 6 doi: 10.7554/eLife.30395
Europe PMC | doi

Aramburu IV, Lemke EA. (2017)

Floppy but not sloppy: Interaction mechanism of FG-Nucleoporins and nuclear transport receptors.

Semin Cell Dev Biol doi: 10.1016/j.semcdb.2017.06.026
Europe PMC | doi

Kozma E, Estrada Girona G, Paci G, Lemke EA, Kele P. (2017)

Bioorthogonal double-fluorogenic siliconrhodamine probes for intracellular super-resolution microscopy.

Chem Commun (Camb) 53(50):6696-6699. doi: 10.1039/c7cc02212c
Europe PMC | doi

Demeter O, Kormos A, Koehler C, Mező G, Németh K, Kozma E, Takács LB, Lemke EA, Kele P. (2017)

Bisazide Cyanine Dyes as Fluorogenic Probes for Bis-Cyclooctynylated Peptide Tags and as Fluorogenic Cross-Linkers of Cyclooctynylated Proteins.

Bioconjug. Chem. 28(5):1552-1559. doi: 10.1021/acs.bioconjchem.7b00178
Europe PMC | doi

Sakin V, Hanne J, Dunder J, Anders-Össwein M, Laketa V, Nikić I, Kräusslich HG, Lemke EA, Müller B. (2017)

A Versatile Tool for Live-Cell Imaging and Super-Resolution Nanoscopy Studies of HIV-1 Env Distribution and Mobility.

Cell Chem Biol doi: 10.1016/j.chembiol.2017.04.007
Europe PMC | doi

Kucher S, Korneev S, Tyagi S, Apfelbaum R, Grohmann D, Lemke EA, Klare JP, Steinhoff HJ, Klose D. (2017)

Orthogonal spin labeling using click chemistry for in vitro and in vivo applications.

J. Magn. Reson. 275:38-45. doi: 10.1016/j.jmr.2016.12.001
Europe PMC | doi

Paci G, Lemke EA. (2017)

Shining a Light on Phase Separation in the Cell.

Cell 168(1-2):11-13. doi: 10.1016/j.cell.2016.12.018
Europe PMC | doi


Nikić I, Estrada Girona G, Kang JH, Paci G, Mikhaleva S, Koehler C, Shymanska NV, Ventura Santos C, Spitz D, Lemke EA. (2016)

Debugging Eukaryotic Genetic Code Expansion for Site-Specific Click-PAINT Super-Resolution Microscopy.

Angew. Chem. Int. Ed. Engl. 55(52):16172-16176. doi: 10.1002/anie.201608284
Europe PMC | doi

Koehler C, Sauter PF, Wawryszyn M, Girona GE, Gupta K, Landry JJ, Fritz MH, Radic K, Hoffmann JE, Chen ZA, Zou J, Tan PS, Galik B, Junttila S, Stolt-Bergner P, Pruneri G, Gyenesei A, Schultz C, Biskup MB, Besir H, Benes V, Rappsilber J, Jechlinger M, Korbel JO, Berger I, Braese S, Lemke EA. (2016)

Genetic code expansion for multiprotein complex engineering.

Nat. Methods doi: 10.1038/nmeth.4032
Europe PMC | doi

Kozma E, Nikic I, Varga BR, Aramburu IV, Kang JH, Fackler OT, Lemke EA, Kele P. (2016)

Hydrophilic trans-Cyclooctenylated Noncanonical Amino Acids for Fast Intracellular Protein Labeling

Chembiochem 17(16):1518-1524. doi: 10.1002/cbic.201600284
Europe PMC | doi

Knorr G, Kozma E, Herner A, Lemke EA, Kele P. (2016)

New Red-Emitting Tetrazine-Phenoxazine Fluorogenic Labels for Live-Cell Intracellular Bioorthogonal Labeling Schemes.

Chemistry 22(26):8972-8979. doi: 10.1002/chem.201600590
Europe PMC | doi

Banterle N, Lemke EA. (2016)

Nanoscale devices for linkerless long-term single-molecule observation.

Curr. Opin. Biotechnol. 39:105-112. doi: 10.1016/j.copbio.2016.02.013
Europe PMC | doi

Sakin V, Paci G, Lemke EA, Müller B. (2016)

Labeling of virus components for advanced, quantitative imaging analyses.

FEBS Lett. doi: 10.1002/1873-3468.12131
Europe PMC | doi

Lemke EA. (2016)

The Multiple Faces of Disordered Nucleoporins.

J Mol Biol doi: 10.1016/j.jmb.2016.01.002
Europe PMC | doi


Vreja IC, Nikić I, Göttfert F, Bates M, Kröhnert K, Outeiro TF, Hell SW, Lemke EA, Rizzoli SO. (2015)

Super-resolution Microscopy of Clickable Amino Acids Reveals the Effects of Fluorescent Protein Tagging on Protein Assemblies.

ACS Nano 9(11):11034-11041. doi: 10.1021/acsnano.5b04434
Europe PMC | doi

Milles S, Mercadante D, Aramburu IV, Jensen MR, Banterle N, Koehler C, Tyagi S, Clarke J, Shammas SL, Blackledge M, Gräter F, Lemke EA. (2015)

Plasticity of an Ultrafast Interaction between Nucleoporins and Nuclear Transport Receptors.

Cell doi: 10.1016/j.cell.2015.09.047
Europe PMC | doi

Delaforge E, Milles S, Bouvignies G, Bouvier D, Boivin S, Salvi N, Maurin D, Martel A, Round A, Lemke EA, Jensen MR, Hart D, Blackledge M. (2015)

Large Scale Conformational Dynamics Control H5N1 Influenza Polymerase PB2 Binding to Importin α.

J. Am. Chem. Soc. doi: 10.1021/jacs.5b07765
Europe PMC | doi

von Appen A, Kosinski J, Sparks L, Ori A, DiGuilio AL, Vollmer B, Mackmull MT, Banterle N, Parca L, Kastritis P, Buczak K, Mosalaganti S, Hagen W, Andres-Pons A, Lemke EA, Bork P, Antonin W, Glavy JS, Bui KH, Beck M. (2015)

In situ structural analysis of the human nuclear pore complex.

Nature 526(7571):140-143. doi: 10.1038/nature15381
Europe PMC | doi

Hoffmann JE, Plass T, Nikić I, Aramburu IV, Koehler C, Gillandt H, Lemke EA, Schultz C. (2015)

Highly Stable trans-Cyclooctene Amino Acids for Live-Cell Labeling.

Chem-Eur J 21(35):12266-12270. doi: 10.1002/chem.201501647
Europe PMC | doi

Wagner JA, Mercadante D, Nikić I, Lemke EA, Grater F. (2015)

Origin of Orthogonality of Strain-Promoted Click Reactions.

Chem-Eur J 21(35):12431-12435. doi: 10.1002/chem.201501727
Europe PMC | doi

Hoffmann JE, Plass T, Nikić I, Aramburu IV, Koehler C, Gillandt H, Lemke EA, Schultz C. (2015)

Frontispiece: Highly Stable trans-Cyclooctene Amino Acids for Live-Cell Labeling.

Chemistry 21(35) doi: 10.1002/chem.201583561
Europe PMC | doi

Nikić I, Lemke EA. (2015)

Genetic code expansion enabled site-specific dual-color protein labeling: superresolution microscopy and beyond.

Curr Opin Chem Biol 28:164-173. doi: 10.1016/j.cbpa.2015.07.021
Europe PMC | doi

Mercadante D, Milles S, Fuertes G, Svergun DI, Lemke EA, Gräter F. (2015)

Kirkwood-Buff Approach Rescues Overcollapse of a Disordered Protein in Canonical Protein Force Fields

J Phys Chem B 119(25):7975-7984. doi: 10.1021/acs.jpcb.5b03440
Europe PMC | doi

Nikić I, Kang JH, Girona GE, Aramburu IV, Lemke EA. (2015)

Labeling proteins on live mammalian cells using click chemistry.

Nat Protoc 10(5):780-791. doi: 10.1038/nprot.2015.045
Europe PMC | doi

Tyagi S, Lemke EA. (2015)

Single-molecule FRET and crosslinking studies in structural biology enabled by noncanonical amino acids.

Curr. Opin. Struct. Biol. 32:66-73. doi: 10.1016/j.sbi.2015.02.009
Europe PMC | doi


Lemke EA. (2014)

Expanding the Genetic Code.

Chembiochem 15(12):1691-1694. doi: 10.1002/cbic.201402362
Europe PMC | doi

Dunne M, Mertens HD, Garefalaki V, Jeffries CM, Thompson A, Lemke EA, Svergun DI, Mayer MJ, Narbad A, Meijers R. (2014)

The CD27L and CTP1L Endolysins Targeting Clostridia Contain a Built-in Trigger and Release Factor

PLoS Pathog. 10(7):e1004228. doi: 10.1371/journal.ppat.1004228
Europe PMC | doi

Pavic K, Rios P, Dzeyk K, Koehler C, Lemke EA, Köhn M. (2014)

Unnatural Amino Acid Mutagenesis Reveals Dimerization As a Negative Regulatory Mechanism of VHR's Phosphatase Activity

ACS Chem. Biol. 9(7):1451-1459. doi: 10.1021/cb500240n
Europe PMC | doi

Milles S, Lemke EA. (2014)

Mapping Multivalency and Differential Affinities within Large Intrinsically Disordered Protein Complexes with Segmental Motion Analysis.

Angew. Chem. Int. Ed. Engl. 53(28):7364-7367. doi: 10.1002/anie.201403694
Europe PMC | doi

Herner A, Estrada Girona G, Nikic I, Kallay M, Lemke EA, Kele P. (2014)

New generation of bioorthogonally applicable fluorogenic dyes with visible excitations and large Stokes-shifts.

Bioconjug. Chem. 25(7):1370-1374. doi: 10.1021/bc500235p
Europe PMC | doi

Tyagi S, Vandelinder V, Banterle N, Fuertes G, Milles S, Agez M, Lemke EA. (2014)

Continuous throughput and long-term observation of single-molecule FRET without immobilization

Nat. Methods 11:297-300. doi: 10.1038/nmeth.2809
Europe PMC | doi

Nikić I, Plass T, Schraidt O, Szymański J, Briggs JA, Schultz C, Lemke EA. (2014)

Minimal Tags for Rapid Dual-Color Live-Cell Labeling and Super-Resolution Microscopy

Angew. Chem. Int. Ed. Engl. 53(8):2245-2249. doi: 10.1002/anie.201309847
Europe PMC | doi


Banterle N, Bui KH, Lemke EA, Beck M. (2013)

Fourier ring correlation as a resolution criterion for super-resolution microscopy

J. Struct. Biol. 183(3):363-367. doi: 10.1016/j.jsb.2013.05.004
Europe PMC | doi

Herner A, Nikić I, Kállay M, Lemke EA, Kele P. (2013)

A new family of bioorthogonally applicable fluorogenic labels

Org. Biomol. Chem. 11(20):3297-3306. doi: 10.1039/c3ob40296g
Europe PMC | doi

Lukinavičius G, Umezawa K, Olivier N, Honigmann A, Yang G, Plass T, Mueller V, Reymond L, Corrêa IR Jr, Luo ZG, Schultz C, Lemke EA, Heppenstall P, Eggeling C, Manley S, Johnsson K. (2013)

A near-infrared fluorophore for live-cell super-resolution microscopy of cellular proteins

Nat Chem 5(2):132-139. doi: 10.1038/nchem.1546
Europe PMC | doi

Milles S, Huy Bui K, Koehler C, Eltsov M, Beck M, Lemke EA. (2013)

Facilitated aggregation of FG nucleoporins under molecular crowding conditions

EMBO Rep. 14(2):178-183. doi: 10.1038/embor.2012.204
Europe PMC | doi

Milles S, Lemke EA. (2013)

What precision-protein-tuning and nano-resolved single molecule sciences can do for each other

Bioessays 35(1):65-74. doi: 10.1002/bies.201200094
Europe PMC | doi

Ori A, Banterle N, Iskar M, Andrés-Pons A, Escher C, Khanh Bui H, Sparks L, Solis-Mezarino V, Rinner O, Bork P, Lemke EA, Beck M. (2013)

Cell type-specific nuclear pores: a case in point for context-dependent stoichiometry of molecular machines

Mol. Syst. Biol. 9:648. doi: 10.1038/msb.2013.4
Europe PMC | doi

Tyagi S, Lemke EA. (2013)

Genetically encoded click chemistry for single-molecule FRET of proteins

Methods Cell Biol. 113:169-187. doi: 10.1016/b978-0-12-407239-8.00009-4
Europe PMC | doi


Milles S, Koehler C, Gambin Y, Deniz AA, Lemke EA. (2012)

Intramolecular three-colour single pair FRET of intrinsically disordered proteins with increased dynamic range

Mol Biosyst 8(10):2531-2534. doi: 10.1039/c2mb25135c
Europe PMC | doi

Borrmann A, Milles S, Plass T, Dommerholt J, Verkade JM, Wiessler M, Schultz C, van Hest JC, van Delft FL, Lemke EA. (2012)

Genetic encoding of a bicyclo[6.1.0]nonyne-charged amino acid enables fast cellular protein imaging by metal-free ligation

Chembiochem 13(14):2094-2099. doi: 10.1002/cbic.201200407
Europe PMC | doi

Krishnan R, Goodman JL, Mukhopadhyay S, Pacheco CD, Lemke EA, Deniz AA, Lindquist S. (2012)

Conserved features of intermediates in amyloid assembly determine their benign or toxic states

Proc. Natl. Acad. Sci. U.S.A. 109(28):11172-11177. doi: 10.1073/pnas.1209527109
Europe PMC | doi

Plass T, Milles S, Koehler C, Szymański J, Mueller R, Wiessler M, Schultz C, Lemke EA. (2012)

Amino acids for Diels-Alder reactions in living cells

Angew. Chem. Int. Ed. Engl. 51(17):4166-4170. doi: 10.1002/anie.201108231
Europe PMC | doi

Milles S, Tyagi S, Banterle N, Koehler C, VanDelinder V, Plass T, Neal AP, Lemke EA. (2012)

Click strategies for single-molecule protein fluorescence

J. Am. Chem. Soc. 134(11):5187-5195. doi: 10.1021/ja210587q
Europe PMC | doi


Milles S, Lemke EA. (2011)

Single molecule study of the intrinsically disordered FG-repeat nucleoporin 153

Biophys. J. 101(7):1710-1719. doi: 10.1016/j.bpj.2011.08.025
Europe PMC | doi

Lemke EA, Schultz C. (2011)

Principles for designing fluorescent sensors and reporters

Nat. Chem. Biol. 7(8):480-483. doi: 10.1038/nchembio.620
Europe PMC | doi

Plass T, Milles S, Koehler C, Schultz C, Lemke EA. (2011)

Genetically encoded copper-free click chemistry

Angew. Chem. Int. Ed. Engl. 50(17):3878-3881. doi: 10.1002/anie.201008178
Europe PMC | doi

Gambin Y, VanDelinder V, Ferreon AC, Lemke EA, Groisman A, Deniz AA. (2011)

Visualizing a one-way protein encounter complex by ultrafast single-molecule mixing

Nat. Methods 8(3):239-241. doi: 10.1038/nmeth.1568
Europe PMC | doi

Lemke EA. (2011)

Site-specific labeling of proteins for single-molecule FRET measurements using genetically encoded ketone functionalities

Methods Mol. Biol. 751:3-15. doi: 10.1007/978-1-61779-151-2_1
Europe PMC | doi


Lemke EA. (2010)

Precision control of cellular pathways with light

Chembiochem 11(13):1825-1827. doi: 10.1002/cbic.201000364
Europe PMC | doi


Lee HS, Guo J, Lemke EA, Dimla RD, Schultz PG. (2009)

Genetic incorporation of a small, environmentally sensitive, fluorescent probe into proteins in Saccharomyces cerevisiae

J. Am. Chem. Soc. 131(36):12921-12923. doi: 10.1021/ja904896s
Europe PMC | doi

Lemke EA, Gambin Y, Vandelinder V, Brustad EM, Liu HW, Schultz PG, Groisman A, Deniz AA. (2009)

Microfluidic device for single-molecule experiments with enhanced photostability

J. Am. Chem. Soc. 131(38):13610-13612. doi: 10.1021/ja9027023
Europe PMC | doi

Gambin Y, Schug A, Lemke EA, Lavinder JJ, Ferreon AC, Magliery TJ, Onuchic JN, Deniz AA. (2009)

Direct single-molecule observation of a protein living in two opposed native structures

Proc. Natl. Acad. Sci. U.S.A. 106(25):10153-10158. doi: 10.1073/pnas.0904461106
Europe PMC | doi

Ferreon AC, Gambin Y, Lemke EA, Deniz AA. (2009)

Interplay of alpha-synuclein binding and conformational switching probed by single-molecule fluorescence

Proc. Natl. Acad. Sci. U.S.A. 106(14):5645-5650. doi: 10.1073/pnas.0809232106
Europe PMC | doi


Brustad EM, Lemke EA, Schultz PG, Deniz AA. (2008)

A general and efficient method for the site-specific dual-labeling of proteins for single molecule fluorescence resonance energy transfer

J. Am. Chem. Soc. 130(52):17664-17665. doi: 10.1021/ja807430h
Europe PMC | doi

Deniz AA, Mukhopadhyay S, Lemke EA. (2008)

Single-molecule biophysics: at the interface of biology, physics and chemistry

J R Soc Interface 5(18):15-45. doi: 10.1098/rsif.2007.1021
Europe PMC | doi


Lemke EA, Summerer D, Geierstanger BH, Brittain SM, Schultz PG. (2007)

Control of protein phosphorylation with a genetically encoded photocaged amino acid

Nat. Chem. Biol. 3(12):769-772. doi: 10.1038/nchembio.2007.44
Europe PMC | doi

Henkel AW, Dittrich PS, Groemer TW, Lemke EA, Klingauf J, Klafki HW, Lewczuk P, Esselmann H, Schwille P, Kornhuber J, Wiltfang J. (2007)

Immune complexes of auto-antibodies against A beta 1-42 peptides patrol cerebrospinal fluid of non-Alzheimer's patients

Mol. Psychiatry 12(6):601-610. doi: 10.1038/sj.mp.4001947
Europe PMC | doi

Mukhopadhyay S, Krishnan R, Lemke EA, Lindquist S, Deniz AA. (2007)

A natively unfolded yeast prion monomer adopts an ensemble of collapsed and rapidly fluctuating structures

Proc. Natl. Acad. Sci. U.S.A. 104(8):2649-2654. doi: 10.1073/pnas.0611503104
Europe PMC | doi


Takamori S, Holt M, Stenius K, Lemke EA, Grønborg M, Riedel D, Urlaub H, Schenck S, Brügger B, Ringler P, Müller SA, Rammner B, Gräter F, Hub JS, De Groot BL, Mieskes G, Moriyama Y, Klingauf J, Grubmüller H, Heuser J, Wieland F, Jahn R. (2006)

Molecular anatomy of a trafficking organelle

Cell 127(4):831-846. doi: 10.1016/j.cell.2006.10.030
Europe PMC | doi


Lemke EA, Klingauf J. (2005)

Single synaptic vesicle tracking in individual hippocampal boutons at rest and during synaptic activity

J. Neurosci. 25(47):11034-11044. doi: 10.1523/jneurosci.2971-05.2005
Europe PMC | doi

Jordan R, Lemke EA, Klingauf J. (2005)

Visualization of synaptic vesicle movement in intact synaptic boutons using fluorescence fluctuation spectroscopy

Biophys. J. 89(3):2091-2102. doi: 10.1529/biophysj.105.061663
Europe PMC | doi


Chakraborty R, Lemke EA, Cao Z, Klebba PE, van der Helm D. (2003)

Identification and mutational studies of conserved amino acids in the outer membrane receptor protein, FepA, which affect transport but not binding of ferric-enterobactin in Escherichia coli

Biometals 16(4):507-518. doi: 10.1023/a:1023485632520
Europe PMC | doi