Klumpp, Stefan

[["dc.bibliographiccitation.artnumber","188102"],["dc.bibliographiccitation.issue","18"],["dc.bibliographiccitation.journal","Physical Review Letters"],["dc.bibliographiccitation.volume","123"],["dc.contributor.author","Lorenz, Charlotta"],["dc.contributor.author","Forsting, Johanna"],["dc.contributor.author","Schepers, Anna V."],["dc.contributor.author","Kraxner, Julia"],["dc.contributor.author","Bauch, Susanne"],["dc.contributor.author","Witt, Hannes"],["dc.contributor.author","Klumpp, Stefan"],["dc.contributor.author","Köster, Sarah"],["dc.date.accessioned","2020-12-10T18:25:50Z"],["dc.date.available","2020-12-10T18:25:50Z"],["dc.date.issued","2019"],["dc.description.abstract","The cytoskeleton is a composite network of three types of protein filaments, among which intermediate filaments (IFs) are the most extensible ones. Two very important IFs are keratin and vimentin, which have similar molecular architectures but different mechanical behaviors. Here we compare the mechanical response of single keratin and vimentin filaments using optical tweezers. We show that the mechanics of vimentin strongly depends on the ionic strength of the buffer and that its force-strain curve suggests a high degree of cooperativity between subunits. Indeed, a computational model indicates that in contrast to keratin, vimentin is characterized by strong lateral subunit coupling of its charged monomers during unfolding of α helices. We conclude that cells can tune their mechanics by differential use of keratin versus vimentin."],["dc.identifier.doi","10.1103/PhysRevLett.123.188102"],["dc.identifier.eissn","1079-7114"],["dc.identifier.issn","0031-9007"],["dc.identifier.pmid","31763918"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/75854"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.relation","info:eu-repo/grantAgreement/EC/H2020/724932/EU//MECHANICS"],["dc.relation.eissn","1079-7114"],["dc.relation.issn","0031-9007"],["dc.relation.orgunit","Fakultät für Physik"],["dc.relation.orgunit","Institut für Röntgenphysik"],["dc.relation.workinggroup","RG Köster (Cellular Biophysics)"],["dc.rights","CC BY-NC-ND 4.0"],["dc.rights.access","openAccess"],["dc.rights.uri","http://creativecommons.org/licenses/by-nc-nd/4.0/"],["dc.subject","intermediate filaments; optical tweezers; atomic force microscopy; cytoskeleton; biomechanics; Monte Carlo simulation"],["dc.subject.ddc","530"],["dc.subject.gro","cytoskeleton"],["dc.subject.gro","cellular biophysics"],["dc.title","Lateral Subunit Coupling Determines Intermediate Filament Mechanics"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.subtype","original_ja"],["dc.type.version","submitted_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","484"],["dc.bibliographiccitation.issue","2"],["dc.bibliographiccitation.journal","Biophysical Journal"],["dc.bibliographiccitation.lastpage","492"],["dc.bibliographiccitation.volume","114"],["dc.contributor.author","Roy, Anjan"],["dc.contributor.author","Klumpp, Stefan"],["dc.date.accessioned","2020-12-10T14:22:45Z"],["dc.date.available","2020-12-10T14:22:45Z"],["dc.date.issued","2018"],["dc.identifier.doi","10.1016/j.bpj.2017.11.3745"],["dc.identifier.issn","0006-3495"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/71717"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.title","Simulating Genetic Circuits in Bacterial Populations with Growth Heterogeneity"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","2173"],["dc.bibliographiccitation.issue","11-12"],["dc.bibliographiccitation.journal","The European Physical Journal Special Topics"],["dc.bibliographiccitation.lastpage","2188"],["dc.bibliographiccitation.volume","225"],["dc.contributor.author","Klumpp, Stefan"],["dc.contributor.author","Faivre, Damien"],["dc.date.accessioned","2018-11-07T10:06:35Z"],["dc.date.available","2018-11-07T10:06:35Z"],["dc.date.issued","2016"],["dc.description.abstract","Magnetotactic bacteria are aquatic microorganisms with the ability to swim along the field lines of a magnetic field, which in their natural environment is provided by the magnetic field of the Earth. They do so with the help of specialized magnetic organelles called magnetosomes, vesicles containing magnetic crystals. Magnetosomes are aligned along cytoskeletal filaments to give linear structures that can function as intracellular compass needles. The predominant viewpoint is that the cells passively align with an external magnetic field, just like a macroscopic compass needle, but swim actively along the field lines, propelled by their flagella. In this minireview, we give an introduction to this intriguing bacterial behavior and discuss recent advances in understanding it, with a focus on the swimming directionality, which is not only affected by magnetic fields, but also by gradients of the oxygen concentration."],["dc.identifier.doi","10.1140/epjst/e2016-60055-y"],["dc.identifier.isi","000387062100008"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/13999"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/39120"],["dc.notes.intern","Merged from goescholar"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Springer"],["dc.publisher.place","Heidelberg"],["dc.relation.issn","1951-6401"],["dc.relation.issn","1951-6355"],["dc.relation.orgunit","Fakultät für Physik"],["dc.rights","CC BY 4.0"],["dc.title","Magnetotactic bacteria Magnetic navigation on the microscale"],["dc.type","review"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","7650"],["dc.bibliographiccitation.issue","24"],["dc.bibliographiccitation.journal","The Journal of Physical Chemistry Letters"],["dc.bibliographiccitation.lastpage","7656"],["dc.bibliographiccitation.volume","10"],["dc.contributor.author","Gomez, David"],["dc.contributor.author","Huber, Klaus"],["dc.contributor.author","Klumpp, Stefan"],["dc.date.accessioned","2020-04-02T14:33:57Z"],["dc.date.available","2020-04-02T14:33:57Z"],["dc.date.issued","2019-12-19"],["dc.description.abstract","The interior of a cell is a highly packed environment that can be occupied up to 40% by different macromolecules. Such crowded media influence different biochemical processes like protein folding, enzymatic activity, and gene regulation. In this work, we use simulations to study protein stability under the presence of crowding agents that interact with the protein by excluded volume interactions. In general, the presence of crowding agents in the solution enhances the stability of the protein's native state. However, we find that the effects of excluded volume depend not only on crowding occupancy but also the crowders' geometry and size. Specifically, we find that polymeric crowders have stronger influence than spherical crowders and that this effect increases with polymer length, while it decreases with increasing size of spherical crowders. These opposing size effects are explained by the interplay of decreasing excluded volume and demixing, which together determine the change in the entropy of the crowders upon folding of the protein."],["dc.identifier.doi","10.1021/acs.jpclett.9b02642"],["dc.identifier.pmid","31763853"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/63556"],["dc.language.iso","en"],["dc.relation.eissn","1948-7185"],["dc.relation.issn","1948-7185"],["dc.relation.issn","1948-7185"],["dc.title","On Protein Folding in Crowded Conditions"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.contributor.author","Schaedel, Laura"],["dc.contributor.author","Lorenz, Charlotta"],["dc.contributor.author","Schepers, Anna V."],["dc.contributor.author","Klumpp, Stefan"],["dc.contributor.author","Köster, Sarah"],["dc.date.accessioned","2020-06-26T11:11:20Z"],["dc.date.available","2020-06-26T11:11:20Z"],["dc.date.issued","2020"],["dc.description.abstract","The cytoskeleton determines cell mechanics and lies at the heart of important cellular functions. Growing evidence suggests that the manifold tasks of the cytoskeleton rely on the interactions between its filamentous components, known as actin filaments, intermediate filaments and microtubules. However, the nature of these interactions and their impact on cytoskeletal dynamics are largely unknown. Here, we show in a re-constituted in vitro system that vimentin intermediate filaments stabilize microtubules against depolymerization and support microtubule rescue. To understand these stabilizing effects, we directly measure the interaction forces between individual microtubules and vimentin filaments. Combined with numerical simulations, our observations provide detailed insight into the physical nature of the interactions and how they affect microtubule dynamics. Thus, we describe an additional, direct mechanism for cells to establish the fundamental cross-talk of cytoskeletal components alongside linker proteins. Moreover, we suggest a novel strategy to estimate the binding energy of tubulin dimers within the microtubule lattice."],["dc.identifier.doi","10.1101/2020.05.20.106179"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/66754"],["dc.language.iso","en"],["dc.relation.orgunit","Institut für Röntgenphysik"],["dc.subject.gro","x-ray imaging"],["dc.subject.gro","x-ray scattering"],["dc.title","Vimentin Intermediate Filaments Stabilize Dynamic Microtubules by Direct Interactions"],["dc.type","preprint"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","7957"],["dc.bibliographiccitation.issue","40"],["dc.bibliographiccitation.journal","The Journal of Physical Chemistry B"],["dc.bibliographiccitation.lastpage","7965"],["dc.bibliographiccitation.volume","126"],["dc.contributor.author","Munoz, Omar"],["dc.contributor.author","Klumpp, Stefan"],["dc.date.accessioned","2022-11-01T10:16:36Z"],["dc.date.available","2022-11-01T10:16:36Z"],["dc.date.issued","2022"],["dc.identifier.doi","10.1021/acs.jpcb.2c05194"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/116608"],["dc.language.iso","en"],["dc.notes.intern","DOI-Import GROB-605"],["dc.relation.eissn","1520-5207"],["dc.relation.issn","1520-6106"],["dc.title","Tug-of-War and Coordination in Bidirectional Transport by Molecular Motors"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.issue","10"],["dc.bibliographiccitation.journal","The European Physical Journal E"],["dc.bibliographiccitation.volume","40"],["dc.contributor.author","Boltz, Horst-Holger"],["dc.contributor.author","Klumpp, Stefan"],["dc.date.accessioned","2020-12-10T18:37:32Z"],["dc.date.available","2020-12-10T18:37:32Z"],["dc.date.issued","2017"],["dc.identifier.doi","10.1140/epje/i2017-11576-6"],["dc.identifier.eissn","1292-895X"],["dc.identifier.issn","1292-8941"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/77006"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.title","Buckling of elastic filaments by discrete magnetic moments"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","11113"],["dc.bibliographiccitation.issue","43"],["dc.bibliographiccitation.journal","The Journal of Physical Chemistry B"],["dc.bibliographiccitation.lastpage","11122"],["dc.bibliographiccitation.volume","120"],["dc.contributor.author","Krepel, Dana"],["dc.contributor.author","Gomez, David"],["dc.contributor.author","Klumpp, Stefan"],["dc.contributor.author","Levy, Yaakov"],["dc.date.accessioned","2018-11-07T10:05:54Z"],["dc.date.available","2018-11-07T10:05:54Z"],["dc.date.issued","2016"],["dc.description.abstract","The key feature explaining the rapid recognition of a DNA target site by its protein lies in the combination of one- and three-dimensional (1D and 3D) diffusion, which allows efficient scanning of the many alternative sites. This facilitated diffusion mechanism is expected to be affected by cellular conditions, particularly crowding, given that up to 40% of the total cellular volume may by occupied by Macromolecules. Using coarse-grained molecular dynamics and Monte Carlo simulations, we show that the crowding particles can enhance facilitated diffusion and accelerate search kinetics. This effect originates from a trade-off between 3D and 1D diffusion. The 3D diffusion coefficient is lower under crowded conditions, but it has little influence because the excluded volume effect of molecular crowding restricts its use. Largely prevented from using 3D diffusion, the searching protein dramatically increases its use of the hopping search mode, which results in a higher linear diffusion coefficient. The coefficient of linear diffusion also increases under crowded conditions as a result of increased collisions between the crowding particles and the searching protein. Overall, less 3D diffusion coupled with an increase in the use of the hopping and speed of 1D diffusion :results in faster search kinetics Under crowded conditions. Our study shows, that the search kinetics and mechanism are modulated not only by the crowding occupancy but also by the properties of the crowding particles and the salt concentration."],["dc.identifier.doi","10.1021/acs.jpcb.6b07813"],["dc.identifier.isi","000387198500004"],["dc.identifier.pmid","27723976"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/38994"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Amer Chemical Soc"],["dc.relation.issn","1520-6106"],["dc.title","Mechanism of Facilitated Diffusion during a DNA Search in Crowded Environments"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","2598"],["dc.bibliographiccitation.issue","4"],["dc.bibliographiccitation.journal","Nano Letters"],["dc.bibliographiccitation.lastpage","2602"],["dc.bibliographiccitation.volume","19"],["dc.contributor.author","Berger, Florian"],["dc.contributor.author","Klumpp, Stefan"],["dc.contributor.author","Lipowsky, Reinhard"],["dc.date.accessioned","2020-12-10T18:09:12Z"],["dc.date.available","2020-12-10T18:09:12Z"],["dc.date.issued","2019"],["dc.identifier.doi","10.1021/acs.nanolett.9b00417"],["dc.identifier.eissn","1530-6992"],["dc.identifier.issn","1530-6984"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/73566"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-354"],["dc.title","Force-Dependent Unbinding Rate of Molecular Motors from Stationary Optical Trap Data"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.issue","3"],["dc.bibliographiccitation.journal","Physical Review Applied"],["dc.bibliographiccitation.volume","18"],["dc.contributor.author","Lepro, Valentino"],["dc.contributor.author","Großmann, Robert"],["dc.contributor.author","Sharifi Panah, Setareh"],["dc.contributor.author","Nagel, Oliver"],["dc.contributor.author","Klumpp, Stefan"],["dc.contributor.author","Lipowsky, Reinhard"],["dc.contributor.author","Beta, Carsten"],["dc.date.accessioned","2022-11-01T10:16:58Z"],["dc.date.available","2022-11-01T10:16:58Z"],["dc.date.issued","2022"],["dc.description.sponsorship"," Deutsche Forschungsgemeinschaft http://dx.doi.org/10.13039/501100001659"],["dc.description.sponsorship"," IMPRS 501100012318"],["dc.identifier.doi","10.1103/PhysRevApplied.18.034014"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/116700"],["dc.language.iso","en"],["dc.notes.intern","DOI-Import GROB-605"],["dc.relation.eissn","2331-7019"],["dc.rights.uri","https://link.aps.org/licenses/aps-default-license"],["dc.title","Optimal Cargo Size for Active Diffusion of Biohybrid Microcarriers"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]