Refined procedure of evaluating experimental single-molecule force spectroscopy data

Fuhrmann A, Anselmetti D, Ros R, Getfert S, Reimann P (2008)
PHYSICAL REVIEW E 77(3): 31912.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
Download
Es wurden keine Dateien hochgeladen. Nur Publikationsnachweis!
DOI
Autor*in
Fuhrmann, Alexander; Anselmetti, DarioUniBi ; Ros, Robert; Getfert, SebastianUniBi; Reimann, PeterUniBi
Einrichtung
SFB 613 Physik von Einzelmolekülprozessen/mol.Erkennung in organ.Sys.
Centrum für Biotechnologie > Institut für Biophysik und Nanowissenschaften
Fakultät für Physik > AG Theorie der Kondensierten Materie
Centrum für Biotechnologie > Arbeitsgruppe D. Anselmetti
Fakultät für Physik > AG Biophysik und angewandte Nanowissenschaften
Abstract / Bemerkung
Dynamic force spectroscopy is a well-established tool to study molecular recognition in a wide range of binding affinities on the single-molecule level. The theoretical interpretation of these data is still very challenging and the models describe the experimental data only partly. In this paper we reconsider the basic assumptions of the models on the basis of an experimental data set and propose an approach of analyzing and quantitatively evaluating dynamic force spectroscopy data on single ligand-receptor complexes. We present our procedure to process and analyze the force-distance curves, to detect the rupture events in an automated manner, and to calculate quantitative parameters for a biophysical characterization of the investigated interaction.
Erscheinungsjahr
2008
Zeitschriftentitel
PHYSICAL REVIEW E
Band
77
Ausgabe
3
Seite(n)
31912
ISSN
1539-3755
eISSN
1550-2376
Page URI
https://pub.uni-bielefeld.de/record/1592084

Zitieren

Fuhrmann A, Anselmetti D, Ros R, Getfert S, Reimann P. Refined procedure of evaluating experimental single-molecule force spectroscopy data. PHYSICAL REVIEW E. 2008;77(3):31912.
Fuhrmann, A., Anselmetti, D., Ros, R., Getfert, S., & Reimann, P. (2008). Refined procedure of evaluating experimental single-molecule force spectroscopy data. PHYSICAL REVIEW E, 77(3), 31912. https://doi.org/10.1103/PhysRevE.77.031912
Fuhrmann, Alexander, Anselmetti, Dario, Ros, Robert, Getfert, Sebastian, and Reimann, Peter. 2008. “Refined procedure of evaluating experimental single-molecule force spectroscopy data”. PHYSICAL REVIEW E 77 (3): 31912.
Fuhrmann, A., Anselmetti, D., Ros, R., Getfert, S., and Reimann, P. (2008). Refined procedure of evaluating experimental single-molecule force spectroscopy data. PHYSICAL REVIEW E 77, 31912.
Fuhrmann, A., et al., 2008. Refined procedure of evaluating experimental single-molecule force spectroscopy data. PHYSICAL REVIEW E, 77(3), p 31912.
A. Fuhrmann, et al., “Refined procedure of evaluating experimental single-molecule force spectroscopy data”, PHYSICAL REVIEW E, vol. 77, 2008, pp. 31912.
Fuhrmann, A., Anselmetti, D., Ros, R., Getfert, S., Reimann, P.: Refined procedure of evaluating experimental single-molecule force spectroscopy data. PHYSICAL REVIEW E. 77, 31912 (2008).
Fuhrmann, Alexander, Anselmetti, Dario, Ros, Robert, Getfert, Sebastian, and Reimann, Peter. “Refined procedure of evaluating experimental single-molecule force spectroscopy data”. PHYSICAL REVIEW E 77.3 (2008): 31912.

6 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Haptotaxis is cell type specific and limited by substrate adhesiveness.
Wen JH, Choi O, Taylor-Weiner H, Fuhrmann A, Karpiak JV, Almutairi A, Engler AJ., Cell Mol Bioeng 8(4), 2015
PMID: 26640598
Bayesian Uncertainty Quantification for Bond Energies and Mobilities Using Path Integral Analysis.
Chang JC, Fok PW, Chou T., Biophys J 109(5), 2015
PMID: 26331254
Interaction of an anticancer peptide fragment of azurin with p53 and its isolated domains studied by atomic force spectroscopy.
Bizzarri AR, Santini S, Coppari E, Bucciantini M, Di Agostino S, Yamada T, Beattie CW, Cannistraro S., Int J Nanomedicine 6(), 2011
PMID: 22162658
Dynamic force spectroscopy of the Helicobacter pylori BabA-Lewis b binding.
Björnham O, Bugaytsova J, Borén T, Schedin S., Biophys Chem 143(1-2), 2009
PMID: 19344994
Controlling atomic joints between carbon nanotubes by electric current.
Nagataki A, Kawai T, Miyamoto Y, Suekane O, Nakayama Y., Phys Rev Lett 102(17), 2009
PMID: 19518813
Maximum likelihood estimation of protein kinetic parameters under weak assumptions from unfolding force spectroscopy experiments.
Aioanei D, Samorì B, Brucale M., Phys Rev E Stat Nonlin Soft Matter Phys 80(6 pt 1), 2009
PMID: 20365199

38 References

Daten bereitgestellt von Europe PubMed Central.

Specific antigen/antibody interactions measured by force microscopy.
Dammer U, Hegner M, Anselmetti D, Wagner P, Dreier M, Huber W, Guntherodt HJ., Biophys. J. 70(5), 1996
PMID: 9172770
Atomic force microscopy detects changes in the interaction forces between GroEL and substrate proteins.
Vinckier A, Gervasoni P, Zaugg F, Ziegler U, Lindner P, Groscurth P, Pluckthun A, Semenza G., Biophys. J. 74(6), 1998
PMID: 9635779
Sensitive force technique to probe molecular adhesion and structural linkages at biological interfaces.
Evans E, Ritchie K, Merkel R., Biophys. J. 68(6), 1995
PMID: 7647261
Dynamic strength of molecular adhesion bonds.
Evans E, Ritchie K., Biophys. J. 72(4), 1997
PMID: 9083660
Kinetics from nonequilibrium single-molecule pulling experiments.
Hummer G, Szabo A., Biophys. J. 85(1), 2003
PMID: 12829459
Force spectroscopy of the double-tethered concanavalin-A mannose bond.
Ratto TV, Langry KC, Rudd RE, Balhorn RL, Allen MJ, McElfresh MW., Biophys. J. 86(4), 2004
PMID: 15041680
Single molecule force spectroscopy in biology using the atomic force microscope.
Zlatanova J, Lindsay SM, Leuba SH., Prog. Biophys. Mol. Biol. 74(1-2), 2000
PMID: 11106806
Force spectroscopy on single passive biomolecules and single biomolecular bonds
Merkel, Physics Reports 346(5), 2001
Data analysis of interaction forces measured with the atomic force microscope
Baumgartner W, Hinterdorfer P, Schindler H., Ultramicroscopy 82(1-4), 2000
PMID: 10741656
Energy landscapes of receptor-ligand bonds explored with dynamic force spectroscopy.
Merkel R, Nassoy P, Leung A, Ritchie K, Evans E., Nature 397(6714), 1999
PMID: 9892352
Unbinding forces of single antibody-antigen complexes correlate with their thermal dissociation rates.
Schwesinger F, Ros R, Strunz T, Anselmetti D, Guntherodt HJ, Honegger A, Jermutus L, Tiefenauer L, Pluckthun A., Proc. Natl. Acad. Sci. U.S.A. 97(18), 2000
PMID: 10963664
Antigen binding forces of individually addressed single-chain Fv antibody molecules.
Ros R, Schwesinger F, Anselmetti D, Kubon M, Schafer R, Pluckthun A, Tiefenauer L., Proc. Natl. Acad. Sci. U.S.A. 95(13), 1998
PMID: 9636161
Force-mediated kinetics of single P-selectin/ligand complexes observed by atomic force microscopy.
Fritz J, Katopodis AG, Kolbinger F, Anselmetti D., Proc. Natl. Acad. Sci. U.S.A. 95(21), 1998
PMID: 9770478
Detection and localization of individual antibody-antigen recognition events by atomic force microscopy.
Hinterdorfer P, Baumgartner W, Gruber HJ, Schilcher K, Schindler H., Proc. Natl. Acad. Sci. U.S.A. 93(8), 1996
PMID: 8622961
Binding strength and activation state of single fibrinogen-integrin pairs on living cells.
Litvinov RI, Shuman H, Bennett JS, Weisel JW., Proc. Natl. Acad. Sci. U.S.A. 99(11), 2002
PMID: 12032299

Zapotoczny, Langmuir 18(18), 2002
Dynamic single-molecule force spectroscopy: bond rupture analysis with variable spacer length
Friedsam, Journal of Physics Condensed Matter 15(18), 2003
Specific binding of the regulatory protein ExpG to promoter regions of the galactoglucan biosynthesis gene cluster of Sinorhizobium meliloti--a combined molecular biology and force spectroscopy investigation.
Bartels FW, Baumgarth B, Anselmetti D, Ros R, Becker A., J. Struct. Biol. 143(2), 2003
PMID: 12972351
Beyond the conventional description of dynamic force spectroscopy of adhesion bonds.
Dudko OK, Filippov AE, Klafter J, Urbakh M., Proc. Natl. Acad. Sci. U.S.A. 100(20), 2003
PMID: 13679588
Dynamic force spectroscopy: optimized data analysis.
Evstigneev M, Reimann P., Phys Rev E Stat Nonlin Soft Matter Phys 68(4 Pt 2), 2003
PMID: 14682989
Beta-cyclodextrin host-guest complexes probed under thermodynamic equilibrium: thermodynamics and AFM force spectroscopy.
Auletta T, de Jong MR, Mulder A, van Veggel FC, Huskens J, Reinhoudt DN, Zou S, Zapotoczny S, Schonherr H, Vancso GJ, Kuipers L., J. Am. Chem. Soc. 126(5), 2004
PMID: 14759218
Theoretical analysis of dynamic force spectroscopy experiments on ligand-receptor complexes.
Raible M, Evstigneev M, Reimann P, Bartels FW, Ros R., J. Biotechnol. 112(1-2), 2004
PMID: 15288937
LexA-DNA bond strength by single molecule force spectroscopy.
Kuhner F, Costa LT, Bisch PM, Thalhammer S, Heckl WM, Gaub HE., Biophys. J. 87(4), 2004
PMID: 15454462
Supramolecular chemistry at the single-molecule level.
Eckel R, Ros R, Decker B, Mattay J, Anselmetti D., Angew. Chem. Int. Ed. Engl. 44(3), 2005
PMID: 15624136
Detailed studies of the binding mechanism of the Sinorhizobium meliloti transcriptional activator ExpG to DNA.
Baumgarth B, Bartels FW, Anselmetti D, Becker A, Ros R., Microbiology (Reading, Engl.) 151(Pt 1), 2005
PMID: 15632443

Lee, Langmuir 10(2), 1994
Single-molecule experiments in synthetic biology: an approach to the affinity ranking of DNA-binding peptides.
Eckel R, Wilking SD, Becker A, Sewald N, Ros R, Anselmetti D., Angew. Chem. Int. Ed. Engl. 44(25), 2005
PMID: 15906400
Single molecule recognition between cytochrome C 551 and gold-immobilized azurin by force spectroscopy.
Bonanni B, Kamruzzahan AS, Bizzarri AR, Rankl C, Gruber HJ, Hinterdorfer P, Cannistraro S., Biophys. J. 89(4), 2005
PMID: 16192283
Poly(Ethylene Glycol): An Ideal Spacer for Molecular Recognition Force Microscopy/Spectroscopy.
Hinterdorfer, Single Molecules 1(2), 2000
Proteoglycan mechanics studied by single-molecule force spectroscopy of allotypic cell adhesion glycans.
Garcia-Manyes S, Bucior I, Ros R, Anselmetti D, Sanz F, Burger MM, Fernandez-Busquets X., J. Biol. Chem. 281(9), 2005
PMID: 16373355
Theoretical analysis of single-molecule force spectroscopy experiments: heterogeneity of chemical bonds.
Raible M, Evstigneev M, Bartels FW, Eckel R, Nguyen-Duong M, Merkel R, Ros R, Anselmetti D, Reimann P., Biophys. J. 90(11), 2006
PMID: 16513778
Intrinsic rates and activation free energies from single-molecule pulling experiments.
Dudko OK, Hummer G, Szabo A., Phys. Rev. Lett. 96(10), 2006
PMID: 16605793
Dynamic force spectroscopy on soft molecular systems: improved analysis of unbinding spectra with varying linker compliance.
Thormann E, Hansen PL, Simonsen AC, Mouritsen OG., Colloids Surf B Biointerfaces 53(2), 2006
PMID: 17023148
Models for the specific adhesion of cells to cells.
Bell GI., Science 200(4342), 1978
PMID: 347575
Adhesion forces between individual ligand-receptor pairs.
Florin EL, Moy VT, Gaub HE., Science 264(5157), 1994
PMID: 8153628
Binding strength between cell adhesion proteoglycans measured by atomic force microscopy.
Dammer U, Popescu O, Wagner P, Anselmetti D, Guntherodt HJ, Misevic GN., Science 267(5201), 1995
PMID: 7855599
Effector-stimulated single molecule protein-DNA interactions of a quorum-sensing system in Sinorhizobium meliloti.
Bartels FW, McIntosh M, Fuhrmann A, Metzendorf C, Plattner P, Sewald N, Anselmetti D, Ros R, Becker A., Biophys. J. 92(12), 2007
PMID: 17384071
Optimal evaluation of single-molecule force spectroscopy experiments.
Getfert S, Reimann P., Phys Rev E Stat Nonlin Soft Matter Phys 76(5 Pt 1), 2007
PMID: 18233704
Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®
Quellen

PMID: 18517427
PubMed | Europe PMC

Suchen in

Google Scholar