Biophysics and Molecular Materials

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limmer2014A Force-Based, Parallel Assay for the Quantification of Protein-DNA Interactions

Katja Limmer, Diana A. Pippig, Daniela Aschenbrenner, Hermann E. Gaub
PLOS ONE, DOI: 10.1371/journal.pone.0089626, Feb. 2014
Analysis of transcription factor binding to DNA sequences is of utmost importance to understand the intricate regulatory mechanisms that underlie gene expression. Several techniques exist that quantify DNA-protein affinity .... more

jove_2013Investigating Receptor-ligand Systems of the Cellulosome with AFM-based Single-molecule Force Spectroscopy

Markus A. Jobst, Constantin Schoeler, Klara Malinowska, Michael A. Nash
JoVE, DOI: 10.3791/50950, Dec. 2013
Cellulosomes are multienzyme complexes designed for digesting cellulose. AFM-based SMFS was used to study the mechanical properties and folding configuration of cellulosome-associated protein .... more

otten_toc_2Protein-DNA force assay in a microfluidic format

Otten M., Wolf P. and Gaub H.E.
Lab Chip, DOI: 10.1039/C3LC50830G, Aug. 2013
The detailed study of protein–DNA interactions is a core effort to elucidate physiological processes, including gene regulation, DNA repair and the immune response. The molecular force .... more

limmer_paper_01 2013Sequence-specific inhibition of Dicer measured with a force-based microarray for RNA ligands

Limmer K., Aschenbrenner D. and Hermann Gaub H.E.
Nucleic Acids Research,  Vol. 41, No. 6 e69, doi:10.1093/nar/gks1455 (2013)
Malfunction of protein translation causes many severe diseases, and suitable correction strategies may become the basis of effective therapies. One major regulatory element of protein translation is the nuclease Dicer that cuts double-stranded RNA.....more


TOC_GraphicPlacing individual molecules in the center of nanoapertures

Heucke S.F., Baumann F., Acuna G.P., Severin P., Stahl S.W., Strackharn M., Stein I., Altpeter P., Tinnefeld P. and Gaub H.E.
Nano Letters, Articles ASAP, June 6, 2013 (Letter), DOI: 10.1021/nl401517a
While nanophotonic devices are unfolding their potential for single-molecule fluorescence studies, metallic quenching and steric hindrance, occurring within these structures, raise the desire for site-specific immobilization of the molecule of interest...............more


heuckeijnthoch2013Nanoapertures for AFM-Based Single-Molecule Force Spectroscopy

Heucke S.F., Puchner E.M., Stahl S.W., Holleitner A.W., Gaub H.E. and Tinnefeld P.
Int. J. Nanotechnology 10, No. 5/6/7, 607–619 (2013)
Simultaneous single-molecule force spectroscopy and microfluorescence binding measurements are often hampered by background fluorescence from the bulk. Zero-Mode Waveguides (ZMW) restrict the excited volume but require a spectial design, which allows the tip of the force probing cantilever to protrude into....... more


severin_bj_2013 Effects of Cytosine Hydroxymethylation on DNA Strand Separation

Philip M. D. Severin, Xueqing Zou, Klaus Schulten and Hermann E. Gaub
Biophysical Journal, Volume 104 January 2013 208–215, DOI: 10.1016/j.bpj.2012.11.013
Cytosine hydroxymethylation is an epigenetic control factor in higher organisms. New discoveries of the biological roles of hydroxymethylation serve to raise questions about how this epigenetic modification exerts its functions and how organisms discriminate cytosine hydroxymethylation from methylation...........more


nanoscale_pippig_strackharnNanoscale arrangement of proteins by Single-Molecule Cut & Paste

Strackharn M., Pippig D.A., Meyer P., Stahl S.W., Gaub H.E.
JACS, 134(37), 15193-6 (2012)
Protein-based nanostructures are key to the organization of life and it is their precise arrangement, which determines their specific functions. A single-molecule approach for the directed assembly of protein arrangements allows for a controlled composition of systems based on protein components. Applying antibodies and .......more

ACSNanoCover_NashSingle-Molecule Adhesion of a Stimuli-Responsive Oligo(ethylene glycol)
Copolymer to Gold

Michael A. Nash and Hermann E. Gaub
ACS Nano, 6 (12), pp 10735–10742 (2012)
Adhesion of environmentally responsive polymers to biocompatible surfaces is an important issue that has been explored in several nanobiotechnology.......more


12 Severin Small-1-1DNA–Protein Binding Force Chip

Philip M. D. Severin and Hermann E. Gaub
Nano Micro Small 8, No. 21, 3269–3273 (2012)
Force measurements provide new fundamental and complementary information on biomolecular interactions, particularly in the high and low affi nity regimes, which may hardly be obtained otherwise..............more


stahl_cohdoc-02-01Single-molecule dissection of the high-affinity cohesin–dockerin complex

Stefan W. Stahl, Michael A. Nash, Daniel B. Fried, Michal Slutzki, Yoav Barak, Edward A. Bayer and Hermann E. Gaub
PNAS 109 , No. 50, 20431–20436 (2012)
Cellulose-degrading enzyme systems are of significant interest from both a scientific and technological perspective due to the diversity of cellulase families, their unique.....more


bild puchner et alSingle-Molecule Mechanoenzymatics

Elias M. Puchner and Hermann E. Gaub
Annual Review Biophysics 41, 497-518 (2012)
The ability of cellular signaling networks to sense, process, and respond to internal and external stimuli relies on their specific detection and trans- duction based on molecular recognition. The molecular mechanisms by which force ............. more


strackharn nanoletters_2012Functional Assembly of Aptamer Binding Sites by Single-MoleculeCut-and-Paste

Mathias Strackharn, Stefan W. Stahl, Elias M. Puchner and Hermann E. Gaub
Nano Lett. 12, 2425-2428 (2012)
Bottom up assembly of functional molecular ensembles with novel properties emerging from composition and arrangement of ......more


pastedgraphic-2Peptide–Antibody Complex as Handle for Single-Molecule Cut & Paste

Mathias Strackharn, Stefan W. Stahl, Philip M. D. Severin, Thomas Nicolaus and Hermann E. Gaub
ChemPhysChem, 13, Issue 4, 914–917 (2012)
Feynman is frequently quoted for having foreseen that individ- ual atoms may be arranged one-by-one to form functional as- semblies. The seminal work by Don Eigler and colleagues convincingly proved the validity of these concepts...........more


Severin PMD, Ho D, Gaub HE (2011).
A high throughput molecular force assay for protein-DNA interactions.
Lab on a Chip, 11 (5):856-862.

Dufrene YF, Evans E, Engel A, Helenius J, Gaub HE, Muller DJ (2011).
Five challenges to bringing single-molecule force spectroscopy into living cells.
Nature Methods, 8 (2):123-127.

Erdmann M, David R, Fornof AR, Gaub HE (2011).
Electric Glue: Electrically Controlled Polymer-Surface Adhesion.
Nano Letters, 11 (5):1993-1996.

Stahl SW, Puchner EM, Alexandrovich A, Gautel M, Gaub HE (2011).
A conditional gating mechanism assures the integrity of the molecular force-sensor titin kinase.
Biophys J., 101 (8):1978-86."

Te Riet J, Katan AJ, Rankl C, Stahl SW, van Buul AM, Phang IY, Gomez-Casado A, Schön P, Gerritsen JW, Cambi A, Rowan AE, Vancso GJ, Jonkheijm P, Huskens J, Oosterkamp TH, Gaub H, Hinterdorfer P, Figdor CG, Speller S. (2011).
Interlaboratory round robin on cantilever calibration for AFM force spectroscopy.
Ultramicroscopy, 111(12):1659-1669.

Pippig DA, Heucke SF, Klamecka K, Kufer SK, Severin PM, Stahl SW, Strackharn M, Gaub HE (2011)
Single molecule cut and paste for protein based functional assembly.
European Biophysics Journal with Biophysics Letters, 40:p. 221-221

Severin Philip M. D., Zou Xueqing, Gaub Hermann E., et al. (2011).
Cytosine methylation alters DNA mechanical properties.
Nucleic Acids Research, 39 (20):8740-8751

Puchner EM, Gaub HE (2010).
Exploring the Conformation-Regulated Function of Titin Kinase by Mechanical Pump and Probe Experiments with Single Molecules.
Angewandte Chemie-International Edition, 49 (6):1147-1150.

Erdmann M, David R, Fornof A, Gaub HE (2010).
Electrically controlled DNA adhesion.
Nature Nanotechnology, 5 (2):154-159.

Cordes T, Strackharn M, Stahl SW, Summerer W, Steinhauer C, Forthmann C, Puchner EM, Vogelsang J, Gaub HE, Tinnefeld P (2010).
Resolving Single-Molecule Assembled Patterns with Superresolution Blink-Microscopy.
Nano Letters 10 (2):645-651.

Erdmann M, David R, Fornof AR, Gaub HE (2010).
Electrically induced bonding of DNA to gold.
Nature Chemistry, 2 (9):745-749.

Puchner EM, Gaub HE, Editor(s) Graslund A, Rigler R, Widengren J, (2010).
Mechanoenzymatics and Nanoassembly of Single Molecules.
Single Molecule Spectroscopy in Chemistry, Physics and Biology p:289-303.

Vogelsang J, Cordes T, Forthmann C, Steinhauer C, Tinnefeld P (2010).
Intrinsically Resolution Enhancing Probes for Confocal Microscopy.
Nano Letters, 10(2):672-679.

Cordes T, Vogelsang J, Anaya M, Spagnuolo C, Gietl A, Summerer W, Herrmann A, Mullen K, Tinnefeld P (2010).
Single-Molecule Redox Blinking of Perylene Diimide Derivatives in Water.
Journal of the American Chemical Society, 132(7):2404-2409.

Spalthoff C, Egelhaaf M, Tinnefeld P, Kurtz R (2010).
Localized direction selective responses in the dendrites of visual interneurons of the fly.
BMC Biology, 8 Art No. 36.

Kasper R, Harke B, Forthmann C, Tinnefeld P, Hell SW, Sauer M (2010).
Single-Molecule STED Microscopy with Photostable Organic Fluorophores.
Small, 6(13):1379-1384.

Vogelsang J, Steinhauer C, Forthmann C, Stein IH, Person-Skegro B, Cordes T, Tinnefeld P (2010).
Make them Blink: Probes for Super-Resolution Microscopy.
Chemphyschem, 11(12):2475-2490.

Jungmann R, Steinhauer C, Scheible M, Kuzyk A, Tinnefeld P, Simmel FC (2010).
Single-Molecule Kinetics and Super-Resolution Microscopy by Fluorescence Imaging of Transient Binding on DNA Origami
Nano Letters, 10(11):4756-4761.

Kufer SK, Strackharn M, Stahl SW, Gumpp H, Puchner EM, Gaub HE (2009).
Optically monitoring the mechanical assembly of single molecules.
Nature Nanotechnology 4 (1):45-49.

Ho D, Falter K, Severin P, Gaub HE (2009).
DNA as a Force Sensor in an Aptamer-Based Biochip for Adenosine.
Analytical Chemistry 81 (8):3159-3164.

Ho D, Dose C, Albrecht CH, Severin P, Falter K, Dervan PB, Gaub HE (2009).
Quantitative Detection of Small Molecule/DNA Complexes Employing a Force-Based and Label-Free DNA-Microarray.
Biophysical Journal 96 (11):4661-4671.

Gumpp H, Stahl SW, Strackharn M, Puchner EM, Gaub HE (2009).
Ultrastable combined atomic force and total internal fluorescence microscope.
Review of Scientific Instruments 80 (6): Art No. 063704.

Stahl SW, Puchner EM, Gaub HE (2009).
Photothermal cantilever actuation for fast single-molecule force spectroscopy.
Review of Scientific Instruments, 80(7):Art No. 073702.

Gumpp H, Puchner EM, Zimmermann JL, Gerland U, Gaub HE, Blank K (2009).
Triggering Enzymatic Activity with Force.
Nano Letters 9 (9):3290-3295.

Gaub BM, Kaul C, Zimmermann JL, Carell T, Gaub HE (2009).
Switching the mechanics of dsDNA by Cu salicylic aldehyde complexation.
Nanotechnology, 20 (43): Art No. 434002.

Gumpp H, Stahl SW, Strackharn M, Puchner EM, Gaub HE (2009).
Ultrastable combined atomic force and total internal fluorescence microscope
(vol 80, 063704, 2009).Review of Scientific Instruments, 80 (10): Art No. 109901.

Puchner EM, Gaub HE (2009).
Force and function: probing proteins with AFM-based force spectroscopy.
Current Opinion in Structural Biology, 19 (5):605-614.

Ho D, Zimmermann JL, Dehmelt FA, Steinbach U, Erdmann M, Severin P, Falter K, Gaub HE (2009).
Force-Driven Separation of Short Double-Stranded DNA.
Biophysical Journal 97 (12):3158-3167.

Vogelsang J, Cordes T, Tinnefeld P (2009).
Single-molecule photophysics of oxazines on DNA and its application in a FRET switch.
Photochemical& Photobiological Sciences, 8(4):486-496.

Vogelsang J, Cordes T, Tinnefeld P (2009).
On the Mechanism of Trolox as Antiblinking and Antibleaching Reagent.
Journal of the American Chemical Society, 131(14):5018.

Vogelsang J, Cordes T, Forthmann C, Steinhauer C, Tinnefeld P (2009).
Controlling the fluorescence of ordinary oxazine dyes for single-molecule switching and superresolution microscopy.
Proceedings of the National Academy of Sciences of the United States of America, 106(20):8107-8112.

Person B, Stein IH, Steinhauer C, Vogelsang J, Tinnefeld P (2009).
Correlated Movement and Bending of Nucleic Acid Structures Visualized by Multicolor Single-Molecule Spectroscop.
Chemphyschem, 10(9-10):1455-1460.

Steinhauer C, Jungmann R, Sobey TL, Simmel FC, Tinnefeld P (2009).
DNA Origami as a Nanoscopic Ruler for Super-Resolution Microscopy.
Angewandte Chemie-International Edition, 48(47):8870-8873.

Kufer SK, Puchner EM, Gumpp H, Liedl T, Gaub HE (2008).
Single-molecule cut-and-paste surface assembly.
Science, 319 (5863):594-596

Helenius J, Heisenberg CP, Gaub HE, Muller DJ (2008).
Single-cell force spectroscopy.
Journal of Cell Science, 121 (11):1785-1791

Albrecht CH, Neuert G, Lugmaier RA, Gaub HE (2008).
Molecular force balance measurements reveal that double-stranded DNA unbinds under force in rate-dependent pathways.
Biophysical Journal, 94 (12):4766-4774

Sonnenberg L, Billon L, Gaub HE (2008).
Competitive adhesion reduces the effective bridging length of polymers.
Macromolecules, 41 (10):3688-3691

Engel A, Gaub HE (2008).
Structure and mechanics of membrane proteins.
Annual Review of Biochemistry, 77127-148

Puchner EM, Franzen G, Gautel M, Gaub HE (2008).
Comparing proteins by their unfolding pattern.
Biophysical Journal,95 (1):426-434

Morfill J, Neumann J, Blank K, Steinbach U, Puchner EM, Gottschalk KE, Gaub HE (2008).
Force-based analysis of multidimensional energy landscapes: Application of dynamic force spectroscopy and steered molecular dynamics simulations to an antibody fragment-peptide complex.
Journal of Molecular Biology, 381 (5):1253-1266

Puchner EM, Alexandrovich A, Kho AL, Hensen U, Schafer LV, Brandmeier B, Grater F, Grubmuller H, Gaub HE, Gautel M (2008).
Mechanoenzymatics of titin kinase.
Proceedings of the National Academy of Sciences of the united States of America, 105 (36):13385-13390

David R, Ho D, Gaub HE (2008).
Molecular force balance for the investigation of receptor-ligand-interactions on living cells.
Journal pf Peptide Science, 14 (8):134-134

Puchner EM, Kufer SK, Strackharn M, Stahl SW, Gaub HE (2008).
Nanoparticle Self-Assembly on a DNA-Scaffold Written by Single-Molecule Cut-and-Paste.
Nano Letters, 8 (11):3692-3695

Puchner EM, Alexandrovich A, Kho AL, Hensen U, Schafer LV, Brandmeier B, Grater F, Grubmuller H, Gaub HE, Gautel M (2008).
Mechanoenzymatics of titin kinase
(vol 105, pg 13385, 2008).Proceedings of the National Academy of Sciences of the United States of America, 105 (52):21045-21045

Vogelsang J, Kasper R, Steinhauer C, Person B, Heilemann M, Sauer M, Tinnefeld P (2008).
A reducing and oxidizing system minimizes photobleaching and blinking of fluorescent dyes.
Angewandte Chemie-International Edition, 47(29):5465-5469

Heilemann M, van de Linde S, Schuttpelz M, Kasper R, Seefeldt B, Mukherjee A, Tinnefeld P, Sauer M (2008).
Subdiffraction-resolution fluorescence imaging with conventional fluorescent probes.
Angewandte Chemie-International Edition, 47 (33):6172-6176

Huang S, Xiao Q, He ZK, Liu Y, Tinnefeld P, Su XR, Peng XN (2008).
A high sensitive and specific QDs FRET bioprobe for MNase.
Chemical Communications, (45):5990-5992

Seefeldt B, Kasper R, Seidel T, Tinnefeld P, Dietz KJ, Heilemann M, Sauer M (2008).
Fluorescent proteins for single-molecule fluorescence applications.
Journal of Biophotonics, 1(1):74-82

Steinhauer C, Forthmann C, Vogelsang J, Tinnefeld P (2008).
Superresolution Microscopy on the Basis of Engineered Dark States.
Journal of the American Chemical Society, 130(50):16840

Schmitz J, Gottschalk KE (2008).
Mechanical regulation of cell adhesion.
Soft Matter, 4(7):1373-1387

Schmitz J, Benoit M, Gottschalk KE (2008).
The viscoelasticity of membrane tethers and its importance for cell adhesion.
Biophysical Journal, 95(3):1448-1459

Kuhner F, Lugmaier RA, Mihatsch S, Gaub HE (2007).
Print your atomic force microscope.
Review of Scientific Instruments, 78(7): Art N° 075105

Kuhner F, Morfill J, Neher RA, Blank K, Gaub HE (2007).
Force-induced DNA slippage.
Biophysical Journal, 92(7):2491-2497

Morfill J, Kuhner F, Blank K, Lugmaier RA, Sedlmair J, Gaub HE (2007).
B-S transition in short oligonucleotides.
Biophysical Journal, 93(7):2400-2409

Neuert G, Albrecht CH, Gaub HE (2007).
Predicting the rupture probabilities of molecular bonds in series.
Biophysical Journal, 93 (4):1215-1223

Schafer LV, Muller EM, Gaub HE, Grubmuller H (2007).
Elastic properties of photoswitchable azobenzene polymers from molecular dynamics simulations.
Angewandte Chemie-International Edition, 46 (13):2232-2237

Sonnenberg L, Parvole J, Kuhner F, Billon L, Gaub HE (2007).
Choose sides: Differential polymer adhesion.
Langmuir, 23 (12):6660-6666

Morfill J, Blank K, Zahnd C, Luginbuhl B, Kuhner F, Gottschalk KE, Pluckthun A, Gaub HE (2007).
Affinity-matured recombinant antibody fragments analyzed by single-molecule force Spectroscopy.
Biophysical Journal, 933583-3590

Dose C, Ho D, Gaub HE, Dervan PB, Albrecht CH (2007).
Recognition of "mirror-image" DNA by small molecules.
Angewandte Chemie-International Edition, 468384-8387

Cui SX, Yu J, Kuhner F, Schulten K, Gaub HE (2007).
Double-stranded DNA dissociates into single strands when dragged into a poor solvent.
Journal of the American Chemical Society, 12914710-14716

Sonnenberg L, Luo YF, Schlaad H, Seitz M, Colfen H, Gaub HE (2007).
Quantitative single molecule measurements on the interaction forces of poly(L-glutamic acid) with calcite crystals.
Journal of the American Chemical Society,129 (49):15364-15371

Vogelsang J, Doose S, Sauer M, Tinnefeld P (2007).
Single-molecule fluorescence resonance energy transfer in nanopipets: Improving distance resolution and concentration range.
Analytical Chemistry 797367-7375

Albrecht, Clausen-Schaumnn H, Gaub HE (2006).
Differential analysis of biomolecular forces.
Journal of Physics-Condensed Matter, 18(18):S581–S599.

Blank K, Morfill J, Gumpp H, Gaub HE (2006).
Functional expression of Candida antarctica lipase B in Eschericha coli.
J of Biotechnology, 125(4):474-483.

Blank K, Morfill J, Gaub HE (2006).
Site-specific immobilization of genetically engineered variants of Candida antartica lipase B.
Chembiochem, 7(9):1349–1351.

Cui SX, Albrecht C, Kuhner F, Gaub HE (2006).
Weakly bound water molecules shorten single-stranded DNA.
J of the American Chemical Society, 128(20):6636-6639.

Friedsam C, Gaub HE, Netz RR (2006).
Probing surfaces with single-polymer atomic force microscope ex periments.

Kessler M, Gaub HE(2006).
Unfolding barriers in bacteriorhodopsin probed from the cytoplasmic and the extracellular side by AFM.
Structure, 14(3):521-527.

Kessler M, Gottschalk KE, Janovjak H, Muller DJ, Gaub HE (2006).
Bacteriorhodopsin folds into the membrane against an external force.
J of Molecular Biology, 357(2):644–654.

Kuhner F, Erdmann M, Sonnenberg L, Serr A, Morfill J, Gaub HE (2006).
Friction of single polymers at surfaces.
Langmuir, 22(26):11180–11186.

Kuhner F, Gaub HE (2006).
Modelling cantilever-based force spectroscopy with polymers.
Polymer, 47(7):2555–2563.

Kuhner F, Erdmann M, Gaub HE (2006).
Scaling exponent and Kuhn length of pinned polymers by single molecule force spectroscopy.
Physical Review Letters, 97 Art No. 218301.

Neuert G, Albrecht C, Pamir E, Gaub HE (2006).
Dynamic force spectroscopy of the digoxigenin-antibody complex.
Febs Letters, 580(2):505–509.

Neuert G, Hugel T, Netz RR, Gaub HE (2006).
Elasticity of poly(azobenzene-peptides).
Macromolecules, 39(2):789-797.

Sonnenberg L, Parvole J, Borisov O, Billon L, Gaub HE, Seitz M (2006).
AFM-based single molecule force spectroscopy of end-grafted poly(acrylic acid) monolayers.
Macromolecules, 39(1):281-288.

Friedsam C, Gaub H, and Netz R (2005).
Adsorption energies of single charged polymers.
Europhysics Letters, 72(5):844–850.

Füzesi M, Gottschalk KE, Lindzen M, Shainskaya A, Küster B, Garty H, and Karlish SJ (2005).
Covalent cross-links between the gamma subunit (FXYD2) and alpha and beta subunits of Na,K-ATPase: modeling the alpha-gamma interaction.
J Biol Chem, 280(18):18291–18301.

Gottschalk KE (2005).
A coiled-coil structure of the alphaIIbbeta3 integrin transmembrane and cytoplasmic domains in its resting state.
Structure, 13(5):703–712.

Heilemann M, Margeat E, Kasper R, Sauer M, and Tinnefeld P (2005).
Carbocyanine dyes as efficient reversible single-molecule optical switch.
J Am Chem Soc, 127(11):3801-3806.

Heinlein T, Biebricher A, Schluter P, Roth CM, Herten DP, Wolfrum J, Heilemann M, Muller C, Tinnefeld P, and Sauer M (2005).
High-resolution colocalization of single molecules within the resolution gap of far-field microscopy.
ChemPhysChem, 6(5):949-955.

Hugel T, Rief M, Seitz M, Gaub H, and Netz R (2005).
Highly stretched single polymers: Atomic-force-microscope experiments versus ab-initio theory.
Physical Review Letters, 94(4):048301.

Kirchner C, Liedl T, Kudera S, Pellegrino T, Javier A, Gaub H, Stolzle S, Fertig N, and Parak W (2005).
Cytotoxicity of colloidal CdSe and CdSe/ZnS nanoparticles.
Nano Letters, 5(2):331–338.

Kufer S, Dietz H, Albrecht C, Blank K, Kardinal A, Rief M, and Gaub H (2005).
Covalent immobilization of recombinant fusion proteins with hAGT for single molecule force spectroscopy.
European Biophysics Journal With Biophysics Letters, 35(1):72–78.

Lugmaier R, Hugel T, Benoit M, and Gaub H (2005).
Phase contrast and DIC illumination for AFM hybrids.
Ultramicroscopy, 104(3-4):255–260.

Neuert G, Kufer S, Benoit M, and Gaub H (2005).
Modular multichannel surface plasmon spectrometer.
Review Of Scientific Instruments, 76(5):054303.

Strugatsky D, Gottschalk KE, Goldshleger R, and Karlish SJ (2005).
D443 of the N domain of Na+,K+-ATPase interacts with the ATP-Mg2+ complex, possibly via a second Mg2+ ion.
Biochemistry, 44(49):15961–15969.

Tinnefeld P, and Sauer M (2005).
Branching out of single-molecule fluorescence spectroscopy: challenges for chemistry and influence on biology.
Angew Chem Int Ed, 44(18):2642-2671.

Tinnefeld P, Heilemann M, and Sauer M (2005).
Design of molecular photonic wires based on multistep electronic excitation transfer.
ChemPhysChem, 6(2):217-222.

Bell TD, Habuchi S, Masuo S, Österling I, Müllen K, Tinnefeld P, Sauer M, van der Auweraer M, Hofkens J, and De Schryver F (2004).
Single photon emission from a dendrimer containing eight perylene diimide chromophores.
Aust J Chem, 57(12):1169-1173.

Biebricher A, Paul A, Tinnefeld P, Gölzhäuser A, and Sauer M (2004).
Controlled three-dimensional immobilization of biomolecules on chemically patterned surfaces.
J Biotechnol, 112(1-2):97-107.

Blank K, Lankenau A, Mai T, Schiffmann S, Gilbert I, Hirler S, Albrecht C, Benoit M, Gaub H, and Clausen-Schaumann H (2004).
Double-chip protein arrays: force-based multiplex sandwich immunoassays with increased specificity.
Analytical And Bioanalytical Chemistry, 379(7-8):974–981.

Friedsam C, Becares A, Jonas U, Seitz M, and Gaub H (2004).
Adsorption of polyacrylic acid on self-assembled monolayers investigated by single-molecule force spectroscopy.
New Journal Of Physics, 6:9.

Friedsam C, Seitz M, and Gaub H (2004).
Investigation of polyelectrolyte desorption by single molecule force spectroscopy.
Journal Of Physics-Condensed Matter, 16(26):S2369–S2382.

Gilbert L, Schiffmann S, Rubenwolf S, Jensen K, Mail T, Albrecht C, Lankenau A, Beste G, Blank K, Gaub H, and Clausen-Schaumann H (2004).
Double chip protein arrays using recombinant single-chain Fv antibody fragments.
Proteomics, 4(5):1417–1420.

Gottschalk KE (2004).
Structure prediction of small transmembrane helix bundles.
J Mol Graph Model, 23(1):99–110.

Gottschalk KE, and Kessler H (2004).
A computational model of transmembrane integrin clustering.

Structure, 12(6):1109–1116.

Gottschalk KE, and Kessler H (2004).
Evidence for hetero-association of transmembrane helices of integrins.
FEBS Lett, 557(1-3):253–258.

Gottschalk KE, Neuvirth H, and Schreiber G (2004).
A novel method for scoring of docked protein complexes using predicted protein-protein binding sites.
Protein Eng Des Sel, 17(2):183–189.

Gottschalk KE, Soskine M, Schuldiner S, and Kessler H (2004).
A structural model of EmrE, a multi-drug transporter from Escherichia coli.
Biophys J, 86(6):3335–3348.

Heilemann M, Tinnefeld P, Sanchez Mosteiro G, Garcia Parajo M, Van Hulst N, and Sauer M (2004).
Multistep energy transfer in single molecular photonic wires.
J Am Chem Soc, 126(21):6514-6515.

Herten DP, Biebricher A, Heilemann M, Heinlein T, Müller C, Schlüter P, Tinnefeld P, Weston K, Sauer M, and Wolfrum J (2004).
Optical single molecule techniques for analytical and biological applications.
Rec Res Devel Phys Chem, 7:345-368 (invited article).

Kuhner F, Costa L, Bisch P, Thalhammer S, Heckl W, and Gaub H (2004).
LexA-DNA bond strength by single molecule force spectroscopy.
Biophysical Journal, 87(4):2683–2690.

Marinelli L, Gottschalk K, Meyer A, Novellino E, and Kessler H (2004).
Human integrin alphavbeta5: homology modeling and ligand binding.
J Med Chem, 47(17):4166–4177.

Stein B, George M, Gaub H, and Parak W (2004).
Extracellular measurements of averaged ionic currents with the light-addressable potentiometric sensor (LAPS).
Sensors And Actuators B-Chemical, 98(2-3):299–304.

Tinnefeld P, Buschmann V, Weston K, Biebricher A, Herten DP, Piestert O, Heinlein T, Heilemann M, and Sauer M (2004).
How single-molecule photophysical studies complement ensemble methods for a better understanding of chromophores and interchromophore interactions.
Rec Res Devel Phys Chem, 7:95-125 (invited article).

Tinnefeld P, Hofkens J, Herten DP, Masuo S, Vosch T, Cotlet M, Habuchi S, Mullen K, De Schryver F, and Sauer M (2004).
Higher-excited-state photophysical pathways in multichromophoric systems revealed by single-molecule fluorescence spectroscopy.
ChemPhysChem, 5(11):1786-1790.

Vardy E, Arkin I, Gottschalk K, Kaback HR, and Schuldiner S (2004).
Structural conservation in the major facilitator superfamily as revealed by comparative modeling.
Protein Sci, 13(7):1832–1840.

Albrecht C, Blank K, Lalic-Multhaler M, Hirler S, Mai T, Gilbert I, Schiffmann S, Bayer T, Clausen-Schaumann H, and Gaub H (2003).
DNA: A programmable force sensor.
Science, 301(5631):367–370.

Blank K, Mai T, Gilbert I, Schiffmann S, Rankl J, Zivin R, Tackney C, Nicolaus T, Spinnler K, Oesterhelt F, Benoit M, Clausen-Schaumann H, and Gaub H (2003).
A force-based protein biochip.
Proceedings Of The National Academy Of Sciences Of The United States Of America, 100(20):11356–11360.

Friedsam C, Wehle A, Kuhner F, and Gaub H (2003).
Dynamic single-molecule force spectroscopy: bond rupture analysis with variable spacer length.
Journal Of Physics-Condensed Matter, 15(18):S1709–S1723.

Hofkens J, Cotlet M, Vosch T, Tinnefeld P, Weston K, Ego C, Grimsdale A, Mullen K, Beljonne D, Bredas JL, Jordens S, Schweitzer G, Sauer M, and De Schryver F (2003).
Revealing competitive Forster-type resonance energy-transfer pathways in single bichromophoric molecules.
Proc Natl Acad Sci USA, 100(23):13146-13151.

Holland N, Hugel T, Neuert G, Cattani-Scholz A, Renner C, Oesterhelt D, Moroder L, Seitz M, and Gaub H (2003).
Single molecule force spectroscopy of azobenzene polymers: Switching elasticity of single photochromic macromolecules.
Macromolecules, 36(6):2015–2023.

Krautbauer R, Rief M, and Gaub H (2003).
Unzipping DNA oligomers.
Nano Letters, 3(4):493–496.

Kudera M, Eschbaumer C, Gaub H, and Schubert U (2003).
Analysis of metallo-supramolecular systems using single-molecule force spectroscopy.
Advanced Functional Materials, 13(8):615–620.

Marinelli L, Lavecchia A, Gottschalk K, Novellino E, and Kessler H (2003).
Docking studies on alphavbeta3 integrin ligands: pharmacophore refinement and implications for drug design.
J Med Chem, 46(21):4393–4404.

Seitz M, Friedsam C, Jostl W, Hugel T, and Gaub H (2003).
Probing solid surfaces with single polymers.
Chemphyschem, 4(9):986–990.

Stein B, George M, Gaub H, Behrends J, and Parak W (2003).
Spatially resolved monitoring of cellular metabolic activity with a semiconductor-based biosensor.
Biosensors & Bioelectronics, 18(1):31–41.

Strugatsky D, Gottschalk KE, Goldshleger R, Bibi E, and Karlish SJ (2003).
Expression of Na+,K+-ATPase in Pichia pastoris: analysis of wild type and D369N mutant proteins by Fe2+-catalyzed oxidative cleavage and molecular modeling.
J Biol Chem, 278(46):46064–46073.

Tinnefeld P, Buschmann V, Weston K, and Sauer M (2003).
Direct Observation of collective blinking and energy transfer in a bichromophoric system.
J Phys Chem A, 107(3):323-327.

Vosch T, Cotlet M, Hofkens J, van der Biest K, Lor M, Weston K, Tinnefeld P, Sauer M, Latterini L, Müllen K, and De Schryver F (2003).
Probing Förster Type Energy Pathways in a first generation rigid dendrimer bearing two perylene imide chromophores.
J Phys Chem A, 107(36):6920-6931.

Benoit M, and Gaub H (2002).
Measuring cell adhesion forces with the atomic force microscope at the molecular level.
Cells Tissues Organs, 172(3):174–189.

Gottschalk K, and Kessler H (2002).
The structures of integrins and integrin-ligand complexes: implications for drug design and signal transduction.
Angew Chem Int Ed Engl, 41(20):3767–3774.

Gottschalk K, Adams P, Brunger A, and Kessler H (2002).
Transmembrane signal transduction of the alpha(IIb)beta(3) integrin.
Protein Sci, 11(7):1800–1812.

Gottschalk K, Günther R, and Kessler H (2002).
A three-state mechanism of integrin activation and signal transduction for integrin alpha(v)beta(3).
Chembiochem, 3(5):470–473.

Heilemann M, Herten D, Heintzmann R, Cremer C, Muller C, Tinnefeld P, Weston K, Wolfrum J, and Sauer M (2002).
High-resolution colocalization of single dye molecules by fluorescence lifetime imaging microscopy.
Anal Chem, 74(14):3511-3517.

Hugel T, Holland N, Cattani A, Moroder L, Seitz M, and Gaub H (2002).
Single-molecule optomechanical cycle.
Science, 296(5570):1103–1106.

Kirchner C, George M, Stein B, Parak W, Gaub H, and Seitz M (2002).
Corrosion protection and long-term chemical functionalization of gallium arsenide in an aqueous environment.
Advanced Functional Materials, 12(4):266–276.

Krautbauer R, Fischerlander S, Allen S, and Gaub H (2002).
Mechanical fingerprints of DNA drug complexes.
Single Molecules, 3(2-3):97–103.

Krautbauer R, Pope L, Schrader T, Allen S, and Gaub H (2002).
Discriminating small molecule DNA binding modes by single molecule force spectroscopy.
Febs Letters, 510(3):154–158.

Krautbauer R, Schrader T, Pope L, Allen S, and Gaub H (2002).
Discriminating small molecule DNA binding modes by single molecule force spectroscopy.
Biophysical Journal, 82(1):141A–142A.

Tinnefeld P, Weston K, Vosch T, Cotlet M, Weil T, Hofkens J, Mullen K, De Schryver F, and Sauer M (2002).
Antibunching in the emission of a single tetrachromophoric dendritic system.
J Am Chem Soc, 124(48):14310-14311.

Urry D, Hugel T, Seitz M, Gaub H, Sheiba L, Dea J, Xu J, and Parker T (2002).
Elastin: a representative ideal protein elastomer.
Philosophical Transactions Of The Royal Society Of London Series B-Biological Sciences, 357(1418):169–184.

Weston K, Dyck M, Tinnefeld P, Muller C, Herten D, and Sauer M (2002).
Measuring the number of independent emitters in single-molecule fluorescence images and trajectories using coincident photons.
Anal Chem, 74(20):5342-5349.

Gaub H (2001).
Unfolding bacteriorhodopsin and unbinding CSA by AFM-related techniques.
Abstracts Of Papers Of The American Chemical Society, 221:U324–U324.

Krautbauer R, Allen S, Tessmer I, Skinner G, Pope L, Schrader T, Molloy J, Tendler SJ, and Gaub H (2001).
Single molecule force spectroscopy investigations of DNA-drug interactions.
Abstracts Of Papers Of The American Chemical Society, 221:U345–U345.

Parak W, George M, Kudera R, Gaub H, and Behrends J (2001).
Effects of semiconductor substrate and glia-free culture on the development of voltage-dependent currents in rat striatal neurones.
European Biophysics Journal With Biophysics Letters, 29(8):607–620.

Tinnefeld P, Herten DP, and Sauer M (2001).
Photophysical dynamics of single molecules studied by spectrally-resolved fluorescence lifetime-imaging microscopy (FLIM).
J Phys Chem A, 105(34):7989-8003.

Tinnefeld P, Müller C, and Sauer M (2001).
Time-varying photon probability distribution of individual molecules at room temperature.
Chem Phys Lett, 345(3-4):252-258.

Benoit M, Gabriel D, Gerisch G, and Gaub H (2000).
Discrete interactions in cell adhesion measured by single-molecule force spectroscopy.
Nature Cell Biology, 2(6):313–317.

Bohm S, Parak W, George M, Gaub H, and Lorke A (2000).
Characterization of the field-effect addressable potentiometric sensor (FAPS).
Sensors And Actuators B-Chemical, 68(1-3):266–273.

Clausen-Schaumann H, Rief M, Tolksdorf C, and Gaub H (2000).
Mechanical stability of single DNA molecules.
Biophysical Journal, 78(4):1997–2007.

Clausen-Schaumann H, Seitz M, Krautbauer R, and Gaub H (2000).
Force spectroscopy with single bio-molecules.
Current Opinion In Chemical Biology, 4(5):524–530.

Dettmann W, Grandbois M, Andre S, Benoit M, Wehle A, Kaltner H, Gabius H, and Gaub H (2000).
Differences in zero-force and force-driven kinetics of ligand dissociation from beta-galactoside-specific proteins (plant and animal lectins, immunoglobulin G) monitored by plasmon resonance and dynamic single molecule force microscopy.
Archives Of Biochemistry And Biophysics, 383(2):157–170.

Gaub H (2000).
Single molecule force spectroscopy with AFM-related techniques (Langmuir lecture).
Abstracts Of Papers Of The American Chemical Society, 220:U260–U260.

George M, Parak W, and Gaub H (2000).
Highly integrated surface potential sensors.
Sensors And Actuators B-Chemical, 69(3):266–275.

George M, Parak W, Gerhardt I, Moritz W, Kaesen F, Geiger H, Eisele I, and Gaub H (2000).
Investigation of the spatial resolution of the light-addressable potentiometric sensor.
Sensors And Actuators A-Physical, 86(3):187–196.

Grandbois M, Dettmann W, Benoit M, and Gaub H (2000).
Affinity imaging of red blood cells using an atomic force microscope.
Journal Of Histochemistry & Cytochemistry, 48(5):719–724.

Herten DP, Tinnefeld P, and Sauer M (2000).
Identification of single fluorescently labelled mononucleotide molecules in solution by spectrally resolved time-correlated single-photon counting.
Appl Phys B, 71:765-771.

Irngartinger H, Fettel PW, Escher T, Tinnefeld P, Nord S, and Sauer M (2000).
Substituent effects on redox properties and photoinduced electron transfer in isoxazolo-fullerenes.
Eur J Org Chem, 3:455-465.

Krautbauer R, Clausen-Schaumann H, and Gaub H (2000).
Cisplatin changes the mechanics of single DNA molecules.
Angewandte Chemie-International Edition, 39(21):3912–+.

Oesterhelt F, Oesterhelt D, Pfeiffer M, Engel A, Gaub H, and Muller D (2000).
Unfolding pathways of individual bacteriorhodopsins.
Science, 288(5463):143–146.

Parak W, Dannohl S, George M, Schuler M, Schaumburger J, Gaub H, Muller O, and Aicher W (2000).
Metabolic activation stimulates acid production in synovial fibroblasts.
Journal Of Rheumatology, 27(10):2312–2322.

Parak W, George M, Domke J, Radmacher M, Behrends J, Denyer M, and Gaub H (2000).
Can the light-addressable potentiometric sensor (LAPS) detect extracellular potentials of cardiac myocytes?
Ieee Transactions On Biomedical Engineering, 47(8):1106–1113.

Rief M, Gautel M, and Gaub H (2000).
Unfolding forces of titin and fibronectin domains directly measured by AFM.
Elastic Filaments Of The Cell, 481:129–141.

Schmitt L, Ludwig M, Gaub H, and Tampe R (2000).
A metal-chelating microscopy tip as a new toolbox for single-molecule experiments by atomic force microscopy.
Biophysical Journal, 78(6):3275–3285.

Tinnefeld P, Buschmann V, Herten DP, Han KT, and Sauer M (2000).
Confocal fluorescence lifetime imaging microscopy (FLIM) at the single molecule level.
Single Mol, 1(3):215-223.

Zhang W, Xu Q, Zou S, Li H, Xu W, Zhang X, Shao Z, Kudera M, and Gaub H (2000).
Single-molecule force spectroscopy on Bombyx mori silk fibroin by atomic force microscopy.
Langmuir, 16(9):4305–4308.

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