Publikationen

Zeitschriftenartikel (76)

  1. 1.
    Zeitschriftenartikel
    Bonazzi, F.; Hall, C.; Weikl, T. R.: Membrane morphologies induced by mixtures of arc-shaped particles with opposite curvature. Soft Matter (2020)
  2. 2.
    Zeitschriftenartikel
    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), S. 476 - 484 (2020)
  3. 3.
    Zeitschriftenartikel
    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), S. 9066 - 9079 (2019)
  4. 4.
    Zeitschriftenartikel
    Bonazzi, F.; Weikl, T. R.: Membrane morphologies induced by arc-shaped scaffolds are determined by arc angle and coverage. Biophysical Journal 116 (7), S. 1239 - 1247 (2019)
  5. 5.
    Zeitschriftenartikel
    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, S. 186 - 193 (2019)
  6. 6.
    Zeitschriftenartikel
    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)
  7. 7.
    Zeitschriftenartikel
    Weikl, T. R.: Membrane-Mediated Cooperativity of Proteins. Annual Review of Physical Chemistry 69, S. 521 - 539 (2018)
  8. 8.
    Zeitschriftenartikel
    Bahrami, A. H.; Weikl, T. R.: Curvature-mediated assembly of Janus nanoparticles on membrane vesicles. Nano Letters 18 (2), S. 1259 - 1263 (2018)
  9. 9.
    Zeitschriftenartikel
    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)
  10. 10.
    Zeitschriftenartikel
    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), S. 5649 - 5656 (2018)
  11. 11.
    Zeitschriftenartikel
    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)
  12. 12.
    Zeitschriftenartikel
    Raatz, M.; Weikl, T. R.: Membrane Tubulation by Elongated and Patchy Nanoparticles. Advanced Materials Interfaces 4 (1), 1600325 (2017)
  13. 13.
    Zeitschriftenartikel
    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)
  14. 14.
    Zeitschriftenartikel
    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)
  15. 15.
    Zeitschriftenartikel
    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), S. 655 - 665 (2016)
  16. 16.
    Zeitschriftenartikel
    Bahrami, A. H.; Lipowsky, R.; Weikl, T. R.: The role of membrane curvature for the wrapping of nanoparticles. Soft Matter 12 (2), S. 581 - 587 (2016)
  17. 17.
    Zeitschriftenartikel
    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)
  18. 18.
    Zeitschriftenartikel
    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), S. 81 - 97 (2016)
  19. 19.
    Zeitschriftenartikel
    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), S. 576 - 589 (2016)
  20. 20.
    Zeitschriftenartikel
    Curtis, E. M.; Bahrami, A. H.; Weikl, T. R.; Hall, C. K.: Modeling nanoparticle wrapping or translocation in bilayer membranes. Nanoscale 7 (34), S. 14505 - 14514 (2015)
  21. 21.
    Zeitschriftenartikel
    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)
  22. 22.
    Zeitschriftenartikel
    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)
  23. 23.
    Zeitschriftenartikel
    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, S. 214 - 224 (2014)
  24. 24.
    Zeitschriftenartikel
    Raatz, M.; Lipowsky, R.; Weikl, T. R.: Cooperative wrapping of nanoparticles by membrane tubes. Soft Matter 10 (20), S. 3570 - 3577 (2014)
  25. 25.
    Zeitschriftenartikel
    Weikl, T. R.; Paul, F.: Conformational selection in protein binding and function. Protein Science 23 (11), S. 1508 - 1518 (2014)
  26. 26.
    Zeitschriftenartikel
    Perez-Hernandez, G.; Paul, F.; Giorgino, T.; De Fabritiis, G.; Noe, F.: Identification of slow molecular order parameters for Markov model construction. Journal of Chemical Physics 139 (1), 015102 (2013)
  27. 27.
    Zeitschriftenartikel
    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), S. 867 - 873 (2013)
  28. 28.
    Zeitschriftenartikel
    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)
  29. 29.
    Zeitschriftenartikel
    Bahrami, A. H.: Orientational changes and impaired internalization of ellipsoidal nanoparticles by vesicle membranes. Soft Matter 9 (36), S. 8642 - 8646 (2013)
  30. 30.
    Zeitschriftenartikel
    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), S. 15283 - 15288 (2013)
  31. 31.
    Zeitschriftenartikel
    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), S. 8438 - 8453 (2013)
  32. 32.
    Zeitschriftenartikel
    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), S. 2203 - 2229 (2013)
  33. 33.
    Zeitschriftenartikel
    Bahrami, A. H.; Lipowsky, R.; Weikl, T. R.: Tubulation and Aggregation of Spherical Nanoparticles Adsorbed on Vesicles. Physical Review Letters 109 (18), 188102 (2012)
  34. 34.
    Zeitschriftenartikel
    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), S. 2369 - 2383 (2012)
  35. 35.
    Zeitschriftenartikel
    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, S. 11737 - 11745 (2012)
  36. 36.
    Zeitschriftenartikel
    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)
  37. 37.
    Zeitschriftenartikel
    Hu, J. L.; Weikl, T.; Lipowsky, R.: Vesicles with multiple membrane domains. Soft Matter 7 (13), S. 6092 - 6102 (2011)
  38. 38.
    Zeitschriftenartikel
    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)
  39. 39.
    Zeitschriftenartikel
    Weikl, T. R.: Transition States in Protein Folding. Communications in Computational Physics 7 (2 Sp. Iss.), S. 283 - 300 (2010)
  40. 40.
    Zeitschriftenartikel
    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), S. 19011 - 19016 (2009)
  41. 41.
    Zeitschriftenartikel
    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), S. 186 - 192 (2009)
  42. 42.
    Zeitschriftenartikel
    Krobath, H.; Rózycki, B.; Lipowsky, R.; Weikl, T. R.: Binding cooperativity of membrane adhesion receptors. Soft Matter 5 (17), S. 3354 - 3361 (2009)
  43. 43.
    Zeitschriftenartikel
    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, P11006 (2009)
  44. 44.
    Zeitschriftenartikel
    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), S. 3213 - 3224 (2009)
  45. 45.
    Zeitschriftenartikel
    Weikl, T. R.; Deuster, C. v.: Selected-fit versus induced-fit protein binding: Kinetic differences and mutational analysis. Proteins 75, S. 104 - 110 (2009)
  46. 46.
    Zeitschriftenartikel
    Różycki, B.; Weikl, T. R.; Lipowsky, R.: Stable patterns of membrane domains at corrugated substrates. Physical Review Letters 100 (9), 098103 (2008)
  47. 47.
    Zeitschriftenartikel
    Weikl, T. R.: Transition states in protein folding kinetics: Modeling Phi-Values of small beta-sheet proteins. Biophysical Journal 94 (3), S. 929 - 937 (2008)
  48. 48.
    Zeitschriftenartikel
    Dill, K. A.; Ozkan, S. B.; Shell, M. S.; Weikl, T. R.: The protein folding problem. Annual Review of Biophysics 37, S. 289 - 316 (2008)
  49. 49.
    Zeitschriftenartikel
    Różycki, B.; Lipowsky, R.; Weikl, T.: Effective surface interactions mediated by adhesive particles. Epl 84, 26004 (2008)
  50. 50.
    Zeitschriftenartikel
    Weikl, T. R.: Loop-closure principles in protein folding. Archives of Biochemistry and Biophysics 469 (1), S. 67 - 75 (2008)
  51. 51.
    Zeitschriftenartikel
    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), S. 342 - 346 (2007)
  52. 52.
    Zeitschriftenartikel
    Weikl, T. R.; Dill, K. A.: Transition-states in protein folding kinetics: The structural interpretation of phi values. Journal of Molecular Biology 365 (5), S. 1578 - 1586 (2007)
  53. 53.
    Zeitschriftenartikel
    Krobath, H.; Schutz, G. J.; Lipowsky, R.; Weikl, T. R.: Lateral diffusion of receptor-ligand bonds in membrane adhesion zones: Effect of thermal membrane roughness. Europhysics Letters 78 (3), 38003 (2007)
  54. 54.
    Zeitschriftenartikel
    Różycki, B.; Weikl, T. R.; Lipowsky, R.: Stochastic resonance for adhesion of membranes with active stickers. European Physical Journal E 22 (1), S. 97 - 106 (2007)
  55. 55.
    Zeitschriftenartikel
    Weikl, T. R.; Lipowsky, R.: Membrane adhesion and domain formation. Advances in Planar Lipid Bilayers and Liposomes 5, S. 63 - 127 (2007)
  56. 56.
    Zeitschriftenartikel
    Asfaw, M.; Różycki, B.; Lipowsky, R.; Weikl, T. R.: Membrane adhesion via competing receptor/ligand bonds. EPL 76 (4), S. 703 - 709 (2006)
  57. 57.
    Zeitschriftenartikel
    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), S. 193 - 197 (2006)
  58. 58.
    Zeitschriftenartikel
    Reich, L.; Weikl, T. R.: Substructural cooperativity and parallel versus sequential events during protein unfolding. Proteins-Structure Function and Bioinformatics 63 (4), S. 1052 - 1058 (2006)
  59. 59.
    Zeitschriftenartikel
    Różycki, B.; Weikl, T. R.; Lipowsky, R.: Adhesion of membranes via switchable molecules. Physical Review E 73 (6), 061908 (2006)
  60. 60.
    Zeitschriftenartikel
    Różycki, B.; Lipowsky, R.; Weikl, T. R.: Adhesion of membranes with active stickers. Physical Review Letters 96 (4), 048101 (2006)
  61. 61.
    Zeitschriftenartikel
    Weikl, T. R.: Wie Proteine ihre dreidimensionale Struktur finden. Bioforum 29, S. 40 - 41 (2006)
  62. 62.
    Zeitschriftenartikel
    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), S. 10171 - 10175 (2005)
  63. 63.
    Zeitschriftenartikel
    Weikl, T. R.: Loop-closure events during protein folding: Rationalizing the shape of Phi-value distributions. Proteins: Structure, Function, and Genetics 60 (4), S. 701 - 711 (2005)
  64. 64.
    Zeitschriftenartikel
    Weikl, T. R.; Lipowsky, R.: Pattern formation during T-cell adhesion. Biophysical Journal 87 (6), S. 3665 - 3678 (2004)
  65. 65.
    Zeitschriftenartikel
    Weikl, T. R.; Palassini, M.; Dill, K. A.: Cooperativity in two-state protein folding kinetics. Protein Science 13 (3), S. 822 - 829 (2004)
  66. 66.
    Zeitschriftenartikel
    Weikl, T. R.: Indirect interactions of membrane-adsorbed cylinders. European Physical Journal E 12 (2), S. 265 - 273 (2003)
  67. 67.
    Zeitschriftenartikel
    Weikl, T. R.; Dill, K. A.: Folding rates and low-entropy-loss routes of two-state proteins. Journal of Molecular Biology (London) 329 (3), S. 585 - 598 (2003)
  68. 68.
    Zeitschriftenartikel
    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), S. 953 - 963 (2003)
  69. 69.
    Zeitschriftenartikel
    Weikl, T. R.: Dynamic phase separation of fluid membranes with rigid inclusions. Physical Review E 66 (6), 061915, S. 061915 (2002)
  70. 70.
    Zeitschriftenartikel
    Weikl, T. R.; Andelman, D.; Komura, S.; Lipowsky, R.: Adhesion of membranes with competing specific and generic interactions. European Physical Journal E 8 (1), S. 59 - 66 (2002)
  71. 71.
    Zeitschriftenartikel
    Weikl, T. R.; Groves, J. T.; Lipowsky, R.: Pattern formation during adhesion of multicomponent membranes. EPL 59 (6), S. 916 - 922 (2002)
  72. 72.
    Zeitschriftenartikel
    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), S. 423 - 439 (2001)
  73. 73.
    Zeitschriftenartikel
    Weikl, T. R.; Lipowsky, R.: Adhesion-induced phase behavior of multicomponent membranes. Physical Review E 64 (1), 011903 (2001)
  74. 74.
    Zeitschriftenartikel
    Weikl, T. R.; Lipowsky, R.: Local adhesion of membranes to striped surface domains. Langmuir 16, S. 9338 - 9346 (2000)
  75. 75.
    Zeitschriftenartikel
    Weikl, T. R.; Netz, R. R.; Lipowsky, R.: Unbinding transitions and phase separation of multicomponent membranes. Physical Review E 62, S. R 45 - R 48 (2000)
  76. 76.
    Zeitschriftenartikel
    Weikl, T. R.; Kozlov, M. M.; Helfrich, W.: Interaction of conical membrane inclusions - effect of lateral tension. Physical Review E 57 (6), S. 6988 - 6995 (1998)

Buchkapitel (2)

  1. 77.
    Buchkapitel
    Weikl, T. R.; Hu, J.; Kav, B.; Różycki, B.: Binding and segregation of proteins in membrane adhesion: theory, modeling, and simulations. In: Advances in Biomembranes and Lipid Self-Assembly, Bd. 30, S. 159 - 194 (Hg. Lipowsky, R.) (2019)
  2. 78.
    Buchkapitel
    Weikl, T. R.; Hu, J.; Kav, B.; Różycki, B.: Binding and segregation of proteins in membrane adhesion: theory, modeling, and simulations. In: Advances in Biomembranes and Lipid Self-Assembly, Bd. 30, S. 159 - 194 (2019)

Meeting Abstract (1)

  1. 79.
    Meeting Abstract
    Merlo, C.; Weikl, T. R.: The structural interpretation of phi-values in protein folding kinetics. In Biophysical Journal, 88 (1), S. 213A - 213A. (2005)

Hochschulschrift - Doktorarbeit (5)

  1. 80.
    Hochschulschrift - Doktorarbeit
    Kav, B.: Membrane adhesion mediated via lipid-anchored saccharides. Dissertation, 125 S., Universität Potsdam, Potsdam (2019)
  2. 81.
    Hochschulschrift - Doktorarbeit
    Bonazzi, F.: Shaping of membranes by arc-like particles. Dissertation, Technische Universität, Berlin (2018)
  3. 82.
    Hochschulschrift - Doktorarbeit
    Paul, F.: Markov State Modeling of Binding and Conformational Changes of Proteins. Dissertation, 112 S., Universität Potsdam, Potsdam (2017)
  4. 83.
    Hochschulschrift - Doktorarbeit
    Bahrami, A. H.: Vesicles interacting with nanoparticles. Dissertation, 86 S., Technische Universität, Berlin (2013)
  5. 84.
    Hochschulschrift - Doktorarbeit
    Weikl, T.: Adhäsion von mehrkomponentigen Membranen. Dissertation, Universität Potsdam, Potsdam (1999)

Hochschulschrift - Habilitation (1)

  1. 85.
    Hochschulschrift - Habilitation
    Weikl, T.: Transition states and loop-closure principles in protein folding. Habilitation, Universität Potsdam, Potsdam (2007)

Editorial (1)

  1. 86.
    Editorial
    Zhou, R.; Weikl, T. R.; Ma, Y.-q.: Theoretical modeling of interactions at the bio-nano interface. Nanoscale 12 (19), S. 10426 - 10429 (2020)
 
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