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OnderzoekZernike (ZIAM)

Refereed academic publications of 2008

Molecular Dynamics
  1. Baoukina, S., Monticelli, L., Risselada, H.J., Marrink, S.J. & Tieleman, D.P. The molecular mechanism of lipid monolayer collapse. Proceedings of the National Academy of Sciences of the United States of America 105 (31) 10803-10808 (2008)

  2. Catte, A., Patterson, J.C., Bashtovyy, D., Jones, M.K., Gu, F., Li, L., Rampioni, A., Sengupta, D., Vuorela, T., Niemela, P., Karttunen, M., Marrink, S.J., Vattulainen, I. & Segrest, J.P. Structure of spheroidal HDL particles revealed by combined atomistic and coarse-grained simulations. (vol 94, pg no 2306, 2008). Biophysical Journal 94 (8) 3361 (2008)

  3. Catte, A., Patterson, J.C., Bashtovyy, D., Jones, M.K., Gu, F., Li, L., Rampioni, A., Sengupta, D., Vuorela, T., Niemela, P., Karttunen, M., Marrink, S.J., Vattulainen, I. & Segrest, J.P. Structure of spheroidal HDL particles revealed by combined atomistic and coarse-grained simulations. Biophysical Journal 94 (6) 2306-2319 (2008)

  4. Knecht, V., Risselada, H.J., Mark, A.E. & Marrink, S.J. Electrophoretic mobility does not always reflect the charge on an oil droplet. Journal of Colloid and Interface Science 318 (2) 477-486 (2008)

  5. Marrink, S.J., de Vries, A.H., Harroun, T.A., Katsaras, J. & Wassall, S.R. Cholesterol shows preference for the interior of polyunsaturated lipid. Journal of the American Chemical Society 130 (1) 10-+ (2008)

  6. Monticelli, L., Kandasamy, S.K., Periole, X., Larson, R.G., Tieleman, D.P. & Marrink, S.J. The MARTINI coarse-grained force field: Extension to proteins. Journal of Chemical Theory and Computation 4 (5) 819-834 (2008)

  7. Mueller, D.S., Kampmann, T., Yennamalli, R., Young, P.R., Kobe, B. & Mark, A.E. Histidine protonation and the activation of viral fusion proteins. Biochemical Society Transactions 36 43-45 (2008)

  8. Paquin, R., Ferrage, F., Mulder, F.A.A., Akke, M. & Bodenhausen, G. Multiple-timescale dynamics of side-chain carboxyl and carbonyl groups in proteins by 13C nuclear spin relaxation. Journal of the American Chemical Society 130 (47) 15805-15807 (2008)

  9. Paz, A., Zeev-Ben-Mordehai, T., Lundqvist, M., Sherman, E.Y., Mylonas, E., Weiner, L., Haran, G., Svergun, D.I., Mulder, F.A.A., Sussman, J.L. & Silman, I. Biophysical characterization of the unstructured cytoplasmic domain of the human neuronal adhesion protein neuroligin 3. Biophysical Journal 95 1928-1944 (2008)

  10. Risselada, H.J., Mark, A.E. & Marrink, S.J. Application of mean field boundary potentials in simulations of lipid vesicles. Journal of Physical Chemistry B 112 (25) 7438-7447 (2008)

  11. Risselada, H.J. & Marrink, S.J. The molecular face of lipid rafts in model membranes. Proceedings of the National Academy of Sciences of the United States of America 105 (45) 17367-17372 (2008)

  12. Sengupta, D., Leontiadou, H., Mark, A.E. & Marrink, S.J. Toroidal pores formed by antimicrobial peptides show significant disorder. Biochimica et Biophysica Acta-Biomembranes 1778 (10) 2308-2317 (2008)

  13. Treptow, W., Marrink, S.J. & Tarek, M. Gating motions in voltage-gated potassium channels revealed by coarse-grained molecular dynamics simulations. Journal of Physical Chemistry B 112 (11) 3277-3282 (2008)

  14. Wassenaar, T.A., Quax, W.J. & Mark, A.E. The conformation of the extracellular binding domain of Death Receptor 5 in the presence and absence of the activating ligand TRAIL: A molecular dynamics study. Proteins-Structure Function and Bioinformatics 70 (2) 333-343 (2008)

  15. Yefimov, S., Van der Giessen, E., Onck, P.R. & Marrink, S.J. Mechanosensitive membrane channels in action. Biophysical Journal 94 (8) 2994-3002 (2008)

  16. Zhu, J., Fan, H., Periole, X., Honig, B. & Mark, A.E. Refining homology models by combining replica-exchange molecular dynamics and statistical potentials. Proteins-Structure Function and Bioinformatics 72 (4) 1171-1188 (2008)

Last modified:22 October 2012 2.30 p.m.