Publications

Journal Article

Castillo, S. R.; Rickeard, B. W.; DiPasquale, M.; Nguyen, M. H. L.; Lewis-Laurent, A.; Doktorova, M.; Kav, B.; Miettinen, M. S.; Nagao, M.; Kelley, E. G. et al.; Marquardt, D.: Probing the link between pancratistatin and mitochondrial apoptosis through changes in the membrane dynamics on the nanoscale. Molecular Pharmaceutics 19 (6), pp. 1839 - 1852 (2022)

MPG.PuRe

Journal Article

Bonazzi, F.; Hall, C.; Weikl, T. R.: Membrane morphologies induced by mixtures of arc-shaped particles with opposite curvature. Soft Matter 17 (2), pp. 268 - 275 (2021)

MPG.PuRe

Journal Article

Kav, B.; Demé, B.; Gege, C.; Tanaka, M.; Schneck, E.; Weikl, T. R.: Interplay of trans- and cis-interactions of glycolipids in membrane adhesion. Frontiers in Molecular Biosciences 8 (1047), 754654 (2021)

MPG.PuRe

Journal Article

Pandey, P. R.; Różycki, B.; Lipowsky, R.; Weikl, T. R.: Structural variability and concerted motions of the T cell receptor - CD3 complex. eLife 10, e67195 (2021)

MPG.PuRe

External

Journal Article

Różycki, B.; Weikl, T. R.: Cooperative stabilization of close-contact zones leads to sensitivity and selectivity in T-cell recognition. Cells 10 (5), 1023 (2021)

MPG.PuRe

Journal Article

Kav, B.; Grafmüller, A.; Schneck, E.; Weikl, T. R.: Weak carbohydrate-carbohydrate interactions in membrane adhesion are fuzzy and generic. Nanoscale 12 (33), pp. 17342 - 17353 (2020)

MPG.PuRe

Journal Article

Weikl, T. R.; Hemmateenejad, B.: Accessory mutations balance the marginal stability of the HIV-1 protease in drug resistance. Proteins: Structure, Function, and Bioinformatics 88 (3), pp. 476 - 484 (2020)

MPG.PuRe

Journal Article

Antila, H.; Buslaev, P.; Favela-Rosales, F.; Mendes Ferreira, T.; Gushchin, I.; Javanainen, M.; Kav, B.; Madsen, J. J.; Melcr, J.; Miettinen, M. S. et al.; Määttä, J.; Nencini, R.; Ollila, O.H. S.; Piggot, T. J.: Headgroup Structure and Cation Binding in Phosphatidylserine Lipid Bilayers. The Journal of Physical Chemistry B 123 (43), pp. 9066 - 9079 (2019)

MPG.PuRe

10.

Journal Article

Bonazzi, F.; Weikl, T. R.: Membrane morphologies induced by arc-shaped scaffolds are determined by arc angle and coverage. Biophysical Journal 116 (7), pp. 1239 - 1247 (2019)

MPG.PuRe

11.

Journal Article

Mobaraki, N.; Hemmateenejad, B.; Weikl, T. R.; Sakhteman, A.: On the relationship between docking scores and protein conformational changes in HIV-1 protease. Journal of molecular graphics and modelling 91, pp. 186 - 193 (2019)

MPG.PuRe

12.

Journal Article

Steinkühler, J.; Różycki, B.; Alvey, C.; Lipowsky, R.; Weikl, T. R.; Dimova, R.; Discher, D. E.: Membrane fluctuations and acidosis regulate cooperative binding of “marker of self” CD47 with macrophage checkpoint receptor SIRPα. Journal of Cell Science 132 (4), JCS216770 (2019)

MPG.PuRe

External

13.

Journal Article

Weikl, T. R.; Hu, J.; Kav, B.; Różycki, B.: Binding and segregation of proteins in membrane adhesion: theory, modeling, and simulations. Advances in Biomembranes and Lipid Self-Assembly 30, pp. 159 - 194 (2019)

MPG.PuRe

14.

Journal Article

Bahrami, A. H.; Weikl, T. R.: Curvature-mediated assembly of Janus nanoparticles on membrane vesicles. Nano Letters 18 (2), pp. 1259 - 1263 (2018)

MPG.PuRe

15.

Journal Article

Bassereau, P.; Jin, R.; Baumgart, T.; Deserno, M.; Dimova, R.; Frolov, V. A.; Bashkirov, P. V.; Grubmüller, H.; Jahn, R.; Risselada, H. J. et al.; Johannes, L.; Kozlov, M. M.; Lipowsky, R.; Pucadyil, T. J.; Zeno, W. F.; Stachowiak, J. C.; Stamou, D.; Breuer, A.; Lauritsen, L.; Simon, C.; Sykes, C.; Voth, G. A.; Weikl, T. R.: The 2018 biomembrane curvature and remodeling roadmap. Journal of Physics D: Applied Physics 51 (34), 343001 (2018)

MPG.PuRe

16.

Journal Article

Paul, F.; Noé, F.; Weikl, T. R.: Identifying conformational-selection and induced-fit aspects in the binding-induced folding of PMI from Markov state modeling of atomistic simulations. Journal of Physical Chemistry B 122 (21), pp. 5649 - 5656 (2018)

MPG.PuRe

17.

Journal Article

Sadeghi, M.; Weikl, T. R.; Noe, F.: Particle-based membrane model for mesoscopic simulation of cellular dynamics. The Journal of Chemical Physics 148 (4), 044901 (2018)

MPG.PuRe

pre-print

18.

Journal Article

Weikl, T. R.: Membrane-mediated cooperativity of proteins. Annual Review of Physical Chemistry 69, pp. 521 - 539 (2018)

MPG.PuRe

19.

Journal Article

Meurer, A.; Smith, C. P.; Paprocki, M.; Čertík, O.; Kirpichev, S. B.; Rocklin, M.; Kumar, A.; Ivanov, S.; Moore, J. K.; Singh, S. et al.; Rathnayake, T.; Vig, S.; Granger, B. E.; Muller, R. P.; Bonazzi, F.; Gupta, H.; Vats, S.; Johansson, F.; Pedregosa, F.; Curry, M. J.; Terrel, A. R.; Roučka, Š.; Saboo, A.; Fernando, I.; Kulal, S.; Cimrman, R.; Scopatz, A.: SymPy: symbolic computing in Python. PeerJ Computer Science 3, e103 (2017)

MPG.PuRe

20.

Journal Article

Paul, F.; Wehmeyer, C.; Abualrous, E. T.; Wu, H.; Crabtree, M. D.; Schöneberg, J.; Clarke, J.; Freund, C.; Weikl, T. R.; Noé, F.: Protein-peptide association kinetics beyond the seconds timescale from atomistic simulations. Nature Communications 8, 1095 (2017)

MPG.PuRe

External

21.

Journal Article

Raatz, M.; Weikl, T. R.: Membrane tubulation by elongated and patchy nanoparticles. Advanced Materials Interfaces 4 (1), 1600325 (2017)

MPG.PuRe

22.

Journal Article

Bahrami, A. H.; Lipowsky, R.; Weikl, T. R.: The role of membrane curvature for the wrapping of nanoparticles. Soft Matter 12 (2), pp. 581 - 587 (2016)

MPG.PuRe

23.

Journal Article

Kav, B.; Ozturk, M.; Kabakcioglu, A.: Function changing mutations in glucocorticoid receptor evolution correlate with their relevance to mode coupling. Proteins: Structure, Function, and Bioinformatics 84 (5), pp. 655 - 665 (2016)

MPG.PuRe

24.

Journal Article

Paul, F.; Weikl, T. R.: How to distinguish conformational selection and induced fit based on chemical relaxation rates. PLoS Computational Biology 12 (9), e1005067 (2016)

MPG.PuRe

25.

Journal Article

Sadeghi, J.; Khurshudyan, M.; Farahani, H.: Phenomenological varying modified chaplygin gas with variable G and Λ: toy models for our universe. International Journal of Theoretical Physics, Group Theory and Nonlinear Optics 55 (1), pp. 81 - 97 (2016)

MPG.PuRe

26.

Journal Article

Weikl, T. R.; Hu, J.; Xu, G.-K.; Lipowsky, R.: Binding equilibrium and kinetics of membrane-anchored receptors and ligands in cell adhesion: insights from computational model systems and theory. Cell Adhesion and Migration 10 (5), pp. 576 - 589 (2016)

MPG.PuRe

27.

Journal Article

Curtis, E. M.; Bahrami, A. H.; Weikl, T. R.; Hall, C. K.: Modeling nanoparticle wrapping or translocation in bilayer membranes. Nanoscale 7 (34), pp. 14505 - 14514 (2015)

MPG.PuRe

28.

Journal Article

Hu, J.; Xu, G.-K.; Lipowsky, R.; Weikl, T. R.: Binding kinetics of membrane-anchored receptors and ligands: molecular dynamics simulations and theory. The Journal of Chemical Physics 143 (24), 243137 (2015)

MPG.PuRe

29.

Journal Article

Xu, G.-K.; Hu, J.; Lipowsky, R.; Weikl, T. R.: Binding constants of membrane-anchored receptors and ligands: a general theory corroborated by Monte Carlo simulations. The Journal of Chemical Physics 143 (24), 243136 (2015)

MPG.PuRe

30.

Journal Article

Bahrami, A. H.; Raatz, M.; Agudo-Canalejo, J.; Michel, R.; Curtis, E. M.; Hall, C. K.; Gradzielski, M.; Lipowsky, R.; Weikl, T. R.: Wrapping of nanoparticles by membranes. Advances in Colloid and Interface Science 208, pp. 214 - 224 (2014)

MPG.PuRe

31.

Journal Article

Raatz, M.; Lipowsky, R.; Weikl, T. R.: Cooperative wrapping of nanoparticles by membrane tubes. Soft Matter 10 (20), pp. 3570 - 3577 (2014)

MPG.PuRe

32.

Journal Article

Weikl, T. R.; Paul, F.: Conformational selection in protein binding and function. Protein Science 23 (11), pp. 1508 - 1518 (2014)

MPG.PuRe

33.

Journal Article

Bahrami, A. H.: Orientational changes and impaired internalization of ellipsoidal nanoparticles by vesicle membranes. Soft Matter 9 (36), pp. 8642 - 8646 (2013)

MPG.PuRe

34.

Journal Article

Hu, J. L.; Lipowsky, R.; Weikl, T. R.: Binding constants of membrane-anchored receptors and ligands depend strongly on the nanoscale roughness of membranes. Proceedings of the National Academy of Sciences of the United States of America 110 (38), pp. 15283 - 15288 (2013)

MPG.PuRe

35.

Journal Article

Lipowsky, R.; Rouhiparkouhi, T.; Discher, D. E.; Weikl, T. R.: Domain formation in cholesterol-phospholipid membranes exposed to adhesive surfaces or environments. Soft Matter 9 (35), pp. 8438 - 8453 (2013)

MPG.PuRe

36.

Journal Article

Neuman, B. W.; Kiss, G.; Al-Mulla, H. M. N.; Dokland, T.; Buchmeier, M. J.; Weikl, T.; Schley, D.: Direct observation of membrane insertion by enveloped virus matrix proteins by phosphate displacement. PLoS One 8 (2), e57916 (2013)

MPG.PuRe

37.

Journal Article

Perez-Hernandez, G.; Paul, F.; Giorgino, T.; De Fabritiis, G.; Noe, F.: Identification of slow molecular order parameters for Markov model construction. The Journal of Chemical Physics 139 (1), 015102 (2013)

MPG.PuRe

38.

Journal Article

Rouhiparkouhi, T.; Weikl, T. R.; Discher, D. E.; Lipowsky, R.: Adhesion-Induced Phase Behavior of Two-Component Membranes and Vesicles. International Journal of Molecular Sciences 14 (1), pp. 2203 - 2229 (2013)

MPG.PuRe

39.

Journal Article

Weikl, T. R.; Hemmateenejad, B.: How conformational changes can affect catalysis, inhibition and drug resistance of enzymes with induced-fit binding mechanism such as the HIV-1 protease. Biochimica et Biophysica Acta: Proteins and Proteomics 1834 (5), pp. 867 - 873 (2013)

MPG.PuRe

40.

Journal Article

Bahrami, A. H.; Lipowsky, R.; Weikl, T. R.: Tubulation and aggregation of spherical nanoparticles adsorbed on vesicles. Physical Review Letters 109 (18), 188102 (2012)

MPG.PuRe

41.

Journal Article

Stieger, T.; Schoen, M.; Weikl, T. R.: Adhesion of surfaces mediated by adsorbed particles: Monte Carlo simulations and a general relationship between adsorption isotherms and effective adhesion energies. Soft Matter 8, pp. 11737 - 11745 (2012)

MPG.PuRe

42.

Journal Article

Weikl, T. R.; Boehr, D. D.: Conformational selection and induced changes along the catalytic cycle of Escherichia coli dihydrofolate reductase. Proteins: Structure, Function, and Bioinformatics 80 (10), pp. 2369 - 2383 (2012)

MPG.PuRe

43.

Journal Article

Hu, J. L.; Weikl, T.; Lipowsky, R.: Vesicles with multiple membrane domains. Soft Matter 7 (13), pp. 6092 - 6102 (2011)

MPG.PuRe

44.

Journal Article

Krobath, H.; Rózycki, B.; Lipowsky, R.; Weikl, T. R.: Line tension and stability of domains in cell-adhesion zones mediated by long and short receptor-ligand complexes. PLoS One 6 (8), e23284 (2011)

MPG.PuRe

45.

Journal Article

Rózycki, B.; Lipowsky, R.; Weikl, T. R.: Segregation of receptor-ligand complexes in cell adhesion zones: phase diagrams and the role of thermal membrane roughness. New Journal of Physics 12, 095003 (2010)

MPG.PuRe

46.

Journal Article

Weikl, T. R.: Transition states in protein folding. Communications in Computational Physics 7 (2 Sp. Iss.), pp. 283 - 300 (2010)

MPG.PuRe

47.

Journal Article

Krobath, H.; Rózycki, B.; Lipowsky, R.; Weikl, T. R.: Binding cooperativity of membrane adhesion receptors. Soft Matter 5 (17), pp. 3354 - 3361 (2009)

MPG.PuRe

48.

Journal Article

Noe, F.; Schütte, C.; Vanden-Eijnden, E.; Reich, L.; Weikl, T. R.: Constructing the equilibrium ensemble of folding pathways from short off-equilibrium simulations. Proceedings of the National Academy of Sciences of the United States of America 106 (45), pp. 19011 - 19016 (2009)

MPG.PuRe

49.

Journal Article

Reich, L.; Becker, M.; Seckler, R.; Weikl, T. R.: In vivo folding efficiencies for mutants of the P22 tailspike beta-helix protein correlate with predicted stability changes. Biophysical Chemistry 141 (2-3), pp. 186 - 192 (2009)

MPG.PuRe

50.

Journal Article

Różycki, B.; Lipowsky, R.; Weikl, T. R.: Adhesion of surfaces via particle adsorption: exact results for a lattice of fluid columns. Journal of Statistical Mechanics: Theory and Experiment (11), P11006 (2009)

MPG.PuRe

51.

Journal Article

Weikl, T. R.; Asfaw, M.; Krobath, H.; Rózycki, B.; Lipowsky, R.: Adhesion of membranes via receptor-ligand complexes: domain formation, binding cooperativity, and active processes. Soft Matter 5 (17), pp. 3213 - 3224 (2009)

MPG.PuRe

52.

Journal Article

Weikl, T. R.; Deuster, C. v.: Selected-fit versus induced-fit protein binding: kinetic differences and mutational analysis. Proteins: Structure, Function, and Bioinformatics 75 (1), pp. 104 - 110 (2009)

MPG.PuRe

53.

Journal Article

Dill, K. A.; Ozkan, S. B.; Shell, M. S.; Weikl, T. R.: The protein folding problem. Annual Review of Biophysics 37, pp. 289 - 316 (2008)

MPG.PuRe

54.

Journal Article

Różycki, B.; Lipowsky, R.; Weikl, T.: Effective surface interactions mediated by adhesive particles. EPL 84 (2), 26004 (2008)

MPG.PuRe

55.

Journal Article

Różycki, B.; Weikl, T. R.; Lipowsky, R.: Stable patterns of membrane domains at corrugated substrates. Physical Review Letters 100 (9), 098103 (2008)

MPG.PuRe

56.

Journal Article

Weikl, T. R.: Transition states in protein folding kinetics: modeling Phi-Values of small beta-sheet proteins. Biophysical Journal 94 (3), pp. 929 - 937 (2008)

MPG.PuRe

57.

Journal Article

Weikl, T. R.: Loop-closure principles in protein folding. Archives of Biochemistry and Biophysics 469 (1), pp. 67 - 75 (2008)

MPG.PuRe

58.

Journal Article

Dill, K. A.; Ozkan, S. B.; Weikl, T. R.; Chodera, J. D.; Voelz, V. A.: The protein folding problem: when will it be solved? Current Opinion in Structural Biology 17 (3), pp. 342 - 346 (2007)

MPG.PuRe

59.

Journal Article

Krobath, H.; Schütz, G. J.; Lipowsky, R.; Weikl, T. R.: Lateral diffusion of receptor-ligand bonds in membrane adhesion zones: effect of thermal membrane roughness. EPL 78 (3), 38003 (2007)

MPG.PuRe

60.

Journal Article

Różycki, B.; Weikl, T. R.; Lipowsky, R.: Stochastic resonance for adhesion of membranes with active stickers. European Physical Journal E 22 (1), pp. 97 - 106 (2007)

MPG.PuRe

61.

Journal Article

Weikl, T. R.; Dill, K. A.: Transition-states in protein folding kinetics: the structural interpretation of phi values. Journal of Molecular Biology (London) 365 (5), pp. 1578 - 1586 (2007)

MPG.PuRe

62.

Journal Article

Asfaw, M.; Różycki, B.; Lipowsky, R.; Weikl, T. R.: Membrane adhesion via competing receptor/ligand bonds. EPL 76 (4), pp. 703 - 709 (2006)

MPG.PuRe

63.

Journal Article

Dixit, P. D.; Weikl, T. R.: A simple measure of native-state topology and chain connectivity predicts the folding rates of two-state proteins with and without crosslinks. Proteins: Structure, Function, and Bioinformatics 64 (1), pp. 193 - 197 (2006)

MPG.PuRe

64.

Journal Article

Reich, L.; Weikl, T. R.: Substructural cooperativity and parallel versus sequential events during protein unfolding. Proteins: Structure, Function, and Bioinformatics 63 (4), pp. 1052 - 1058 (2006)

MPG.PuRe

65.

Journal Article

Różycki, B.; Lipowsky, R.; Weikl, T. R.: Adhesion of membranes with active stickers. Physical Review Letters 96 (4), 048101 (2006)

MPG.PuRe

66.

Journal Article

Różycki, B.; Weikl, T. R.; Lipowsky, R.: Adhesion of membranes via switchable molecules. Physical Review E 73 (6), 061908 (2006)

MPG.PuRe

67.

Journal Article

Weikl, T. R.: Wie Proteine ihre dreidimensionale Struktur finden. Bioforum 29, pp. 40 - 41 (2006)

MPG.PuRe

68.

Journal Article

Merlo, C.; Dill, K. A.; Weikl, T. R.: phi values in protein-folding kinetics have energetic and structural components. Proceedings of the National Academy of Sciences of the United States of America 102 (29), pp. 10171 - 10175 (2005)

MPG.PuRe

69.

Journal Article

Weikl, T. R.: Loop-closure events during protein folding: Rationalizing the shape of Phi-value distributions. Proteins: Structure, Function, and Genetics 60 (4), pp. 701 - 711 (2005)

MPG.PuRe

70.

Journal Article

Weikl, T. R.; Lipowsky, R.: Pattern formation during T-cell adhesion. Biophysical Journal 87 (6), pp. 3665 - 3678 (2004)

MPG.PuRe

71.

Journal Article

Weikl, T. R.; Palassini, M.; Dill, K. A.: Cooperativity in two-state protein folding kinetics. Protein Science 13 (3), pp. 822 - 829 (2004)

MPG.PuRe

72.

Journal Article

Weikl, T. R.: Indirect interactions of membrane-adsorbed cylinders. European Physical Journal E 12 (2), pp. 265 - 273 (2003)

MPG.PuRe

73.

Journal Article

Weikl, T. R.; Dill, K. A.: Folding rates and low-entropy-loss routes of two-state proteins. Journal of Molecular Biology (London) 329 (3), pp. 585 - 598 (2003)

MPG.PuRe

74.

Journal Article

Weikl, T. R.; Dill, K. A.: Folding kinetics of two-state proteins: Effect of circularization, permutation, and crosslinks. Journal of Molecular Biology (London) 332 (4), pp. 953 - 963 (2003)

MPG.PuRe

75.

Journal Article

Weikl, T. R.: Dynamic phase separation of fluid membranes with rigid inclusions. Physical Review E 66 (6), 061915, p. 061915 (2002)

MPG.PuRe

76.

Journal Article

Weikl, T. R.; Andelman, D.; Komura, S.; Lipowsky, R.: Adhesion of membranes with competing specific and generic interactions. European Physical Journal E 8 (1), pp. 59 - 66 (2002)

MPG.PuRe

77.

Journal Article

Weikl, T. R.; Groves, J. T.; Lipowsky, R.: Pattern formation during adhesion of multicomponent membranes. EPL 59 (6), pp. 916 - 922 (2002)

MPG.PuRe

78.

Journal Article

Helfrich, W.; Weikl, T. R.: Two direct methods to calculate fluctuation forces between rigid objects embedded in fluid membranes. European Physical Journal E 5 (4), pp. 423 - 439 (2001)

MPG.PuRe

79.

Journal Article

Weikl, T. R.: Fluctuation-induced aggregation of rigid membrane inclusions. EPL (Europhysics Letters) 54 (4), 547 (2001)

MPG.PuRe

80.

Journal Article

Weikl, T. R.; Lipowsky, R.: Adhesion-induced phase behavior of multicomponent membranes. Physical Review E 64 (1), 011903 (2001)

MPG.PuRe

81.

Journal Article

Weikl, T. R.; Lipowsky, R.: Local adhesion of membranes to striped surface domains. Langmuir 16, pp. 9338 - 9346 (2000)

MPG.PuRe

82.

Journal Article

Weikl, T. R.; Netz, R. R.; Lipowsky, R.: Unbinding transitions and phase separation of multicomponent membranes. Physical Review E 62, pp. R 45 - R 48 (2000)

MPG.PuRe

83.

Journal Article

Weikl, T. R.; Kozlov, M. M.; Helfrich, W.: Interaction of conical membrane inclusions - effect of lateral tension. Physical Review E 57 (6), pp. 6988 - 6995 (1998)

MPG.PuRe

Book Chapter (1)

84.

Book Chapter

Weikl, T. R.; Lipowsky, R.: Membrane adhesion and domain formation. In: Advances in Planar Lipid Bilayers and Liposomes, Vol. 5, pp. 63 - 127 (2007)

MPG.PuRe