Leonor Cruzeiro

Physics Department

 

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Publications in Peer Reviewed Journals

57. O.G. Cantu Ros, L. Cruzeiro, W. Ebeling and M.G. Velarde, "On the possibility of electric transport mediated by long living intrinsic localized solectron modes", Eur. J. Phys. B 80: 545-554 (2011).

56. L. Cruzeiro, "The VES Hypothesis and Protein Misfolding", Discrete and Continuous Dynamical Systems, Series S 4: 1033-1046 (2011).

55. H. Freedman, P. Martel and L. Cruzeiro, "Erratum: Mixed quantum-classical dynamics of an amide-I vibrational excitation in a protein
α-helix [Phys. Rev. B 82, 174308 (2010)]", Phys. Rev. B 84: 139902 (2011).

54. H. Freedman, P. Martel and L. Cruzeiro, "Mixed quantum-classical dynamics of an amide I vibrational excitation in a protein α-helix", Phys. Rev. B 82: 174308 (2010).

53. L. Cruzeiro ,"Protein Folding", Chem. Modell. 7: 89-114 (2010).

52. L. Cruzeiro and P.A. Lopes,"Are the native states of proteins kinetic traps?", Mol. Phys. 107: 1485–1493 (2009).

Molecular Physics is available online at: http://journalsonline.tandf.co.uk/

51. L. Cruzeiro,"The Davydov/Scott model for energy storage and transport in proteins'', J. Biol. Phys. 35: 43-55 (2009).

The original publication is available at www.springerlink.com

50. L. Cruzeiro,"Influence of the sign of the coupling on the temperature dependence of optical properties of one dimensional exciton models'', J. Phys. B: At. Mol. Opt. Phys. 41: 195401 (2008).

49. L. Cruzeiro,"Protein's multi-funnel energy landscape and misfolding diseases", J. Phys. Org. Chem. 21: 549-554 (2008).

48. J. Cuevas, P.A.S. Silva, F.R. Romero and L. Cruzeiro,"Dynamics of the Davydov-Scott monomer in a thermal bath: Comparison of the full quantum and semiclassical approaches", Phys.Rev. E 76, 011907 (2007).

47. P.A.S. Silva and L. Cruzeiro, "Dynamics of a nonconserving Davydov monomer", Phys. Rev. E 74: 021920 (2006).

46. L. Cruzeiro, "Influence of the nonlinearity and dipole strength on the amide I band of protein  α-helices", J. Chem. Phys. 123: 234909 (2005).

Selected to the Virtual Journal of Biological Physics Research, 11: (1), January
(2006).

45. L. Cruzeiro, "Why are proteins with glutamine and asparagine-rich regions associated with protein misfolding diseases?", J. Phys.: Condens. Matter 17: 7833-7844 (2005).

44. L. Cruzeiro, J.C. Eilbeck, J.L. Marín and F.M. Russell, "Dynamical two electron states in the Hubbard-Davydov model", Eur. Phys. J. B 42: 95-102 (2004).

43. L.S. Brizhik, L. Cruzeiro-Hansson, A.A. Eremko, Yu. V. Olkhovska. ``Dynamical properties of Davydov solitons in molecular chains'', Ukr. J. Phys. 48(no.7): 667-671 (2003).

42. P.A.S. Silva and L. Cruzeiro-Hansson, ``A reduced set of exact equations of motion for a non-number-conserving Hamiltonian'', Phys. Lett. A 315/6: 447-451 (2003).

41. L. Cruzeiro-Hansson, ``Comment on ``Improvement of the Davydov theory of bioenergy transport in protein molecular systems'''', Phys. Rev. E 66: 023901 (2002).

40. L. Cruzeiro-Hansson and P.A.S. Silva, ``Protein folding: thermodynamic versus kinetic control'', J. Biol. Phys. 27: S6-S9 (2001).

39. L. Cruzeiro-Hansson, J.C. Eilbeck, J.L. Marín and F.M. Russell, ``Breathers in systems with intrinsic and extrinsic nonlinearities'', Physica D 142: 101-112 (2000).

38. L. Cruzeiro-Hansson, J.C. Eilbeck, J.L. Marín and F.M. Russell, ``Interplay between dispersive and non-dispersive modes in the polaron
problem'', Phys. Lett. A 266: 160-166 (2000).

37. L. Brizhik, A. Eremko, L. Cruzeiro-Hansson and Yu. Olkhovska, ``Soliton dynamics and Peierls-Nabarro barrier in a discrete molecular chain.'', Phys. Rev. B 61: 1129-1141 (2000).

36. L. Brizhik, L. Cruzeiro-Hansson, A. Eremko and Yu. Olkhovska, ``Polaron dynamics and Peierls-Nabarro barrier in a discrete molecular chain'', Synt. Metals 109: 113-116 (2000).

35. L. Brizhik, L.Cruzeiro-Hansson and A. Eremko, ``Electromagnetic radiation influence on nonlinear charge and energy transport in biosystems'', J. Biol. Phys. 24: 223-232 (1999).

34. L. Cruzeiro-Hansson, ``Effect of Long Range and anharmonicity in the minimum energy states of the Davydov/Scott model'', Phys. Lett. A 249: 465-473 (1998).

33. L. Brizhik, L. Cruzeiro-Hansson and A. Eremko, ``Influence of Electromagnetic radiation on molecular solitons'', J. Biol. Phys. 24: 19-39 (1998).

32. L. Cruzeiro-Hansson, ``DNA Bending due to Sequence Induced Torsional Stress'', J. Chem. Soc. Faraday Trans. 93: 2419-2425 (1997).

31. L. Cruzeiro-Hansson and S. Takeno, ``Davydov model: the quantum, mixed quantum/classical and full classical systems'', Phys. Rev. E 56: 894-906 (1997).

30. L. Cruzeiro-Hansson, ``The Davydov Hamiltonian leads to stochastic energy transfer in proteins'', Phys. Lett. A 223: 383-388 (1996).

29. L. Cruzeiro-Hansson, ``Dynamics of a mixed quantum-classical system at finite temperature'', Europhys. Lett. 33: 655-659 (1996).

28. L. Cruzeiro-Hansson and V.M. Kenkre, ``Comment on the Phase Problem in the Semiclassical Langevin simulations of the Davydov system'', Math. Comp. Simul. 40: 297-304 (1996).

27. L. Cruzeiro-Hansson and V.M. Kenkre, ``Comparison of Quantum Monte Carlo and Semiclassical Monte Carlo Results in Investigations of the Thermal Stability of Davydov Solitons'', Phys. Lett. A 203: 362-366 (1995).

26. T.X.T. Sayle, L. Cruzeiro-Hansson and J.M. Goodfellow, ``Conformation and Dynamics of Ethylated DNA'', J. Chem. Soc. Faraday Trans. 91: 1465-1470 (1995).

25. L. Cruzeiro-Hansson, K. Parker and J.M. Goodfellow, ``The Conformation and Dynamics of Alkylated Bases within DNA: the Effect of Methyl Rotation'', J. Chem. Soc. Faraday Trans. 91: 251-258 (1995).

24. J.M. Goodfellow, L. Cruzeiro-Hansson, O.N. De Souza, K. Parker,T. Sayle and Y. Umrania, ``DNA structure, hydration and dynamics'', Intl. J. Radiobiol. 66: 471-478 (1994).

23. L. Cruzeiro-Hansson, ``Two reasons why the Davydov soliton may be thermally stable afterall'', Phys. Rev. Lett. 73: 2927-2930 (1994).

22. L. Cruzeiro-Hansson and J.M. Goodfellow, ``Flexibility and curvature of DNA duplexes containing O4-methylthymine: implications for DNA repair'', Carcinogenesis 15: 1525-1533 (1994).

21. V.M. Kenkre and L. Cruzeiro-Hansson, ``Thermal Stability of Nonlinear Structures: A Gibbs Analysis of the Semiclassical System'', Z. Phys. B 95: 379-383 (1994).

20. L. Cruzeiro-Hansson and V.M. Kenkre, ``Localized versus delocalized ground states of the semiclassical Holstein Hamiltonian'', Phys. Lett. A 190: 59-64 (1994).

19. L. Cruzeiro-Hansson and J.M. Goodfellow, ``Comparison of DNA duplexes with and without O4-methylthymine: nanosecond molecular dynamics simulations'', J. Chem. Soc. Faraday Trans. 90: 1415-1427 (1994).

18. L. Cruzeiro-Hansson and J.M. Goodfellow, ``Adenine-methylthymine base pairs enhance non-uniformity in DNA helices'', J. Mol. Biol. 239: 37-51 (1994).

17. V.M. Kenkre, S. Raghavan and L. Cruzeiro-Hansson, ``Thermal Stability of extended nonlinear structures related to the Davydov soliton'', Phys. Rev. B 49: 9511-9521 (1994).

16. K. Parker, L. Cruzeiro-Hansson, and J.M. Goodfellow, ``Conformation
and Flexibility of Oligonucleotides containing O$^{6}$-methylguanine: a molecular dynamics Study'', J. Chem. Soc. Faraday Trans. 89: 2637-2650 (1993).

15. L. Cruzeiro-Hansson, ``Finite temperature simulations of the semiclassical Davydov model'', Physica D 68: 65-67 (1993).

14. L. Cruzeiro-Hansson, J.O. Baum and J.L. Finney, ``Two modified staging algorithms for path integral Monte Carlo simulations'', J. Comput. Phys. 104: 110-117 (1993).

13. L. Cruzeiro-Hansson, P.F. Swann, L. Pearl and J.M. Goodfellow, ``Molecular dynamics of alkylated DNA'', Carcinogenesis 13: 2067-2073 (1992).

12. L. Cruzeiro-Hansson, V.A. Okhonin, R.G. Khlebopros and I.N. Yassievich, ``On exact solutions of the Davydov Model for energy transfer in proteins'', Nanobiology 1: 395-409 (1992).

11. L. Cruzeiro-Hansson, ``Mechanism of thermal destabilization of the Davydov soliton'', Phys. Rev. A 45: 4111-4115 (1992).

10. J. Baum, L. Cruzeiro-Hansson and J. Finney, ``Electron-Benzene and
Benzene-Benzene Potentials for Simulation of an Excess electron in Liquid Benzene'', Phys. Scr. T 33: 71-76 (1990).

9. O.G. Mouritsen, K. Jorgensen, J.H. Ipsen, M.J. Zuckermann and L. Cruzeiro-Hansson, ``Computer simulation of interfacial fluctuation
phenomena'', Phys. Scr. T 33: 42-51 (1990).

8. L. Cruzeiro-Hansson, J.O. Baum and J.L. Finney, ``A New Sampling Scheme for Path Integral Calculations'', Phys. Scr. T 33: 122-125 (1990).

7. L. Cruzeiro-Hansson, H. Feddersen, R. Flesh, P.L. Christiansen, M. Salerno and A.C. Scott, ``Classical and Quantum Analysis of Chaos in the Discrete Self-Trapping Equation'', Phys. Rev. B 42: 522-526 (1990).

6. L. Cruzeiro-Hansson, J.H. Ipsen and O.G. Mouritsen, ``Intrinsic molecules in lipid membranes change the lipid-domain interfacial area: cholesterol at domain interfaces'', Biochim. Biophys. Acta 979: 166-176 (1989).

5. L. Cruzeiro-Hansson and O.G. Mouritsen, ``Passive ion permeability of lipid membranes modelled via lipid-domain interfacial area'', Biochim. Biophys. Acta 944: 63-72 (1988).

4. L. Cruzeiro-Hansson, P.L. Christiansen and J.N. Elgin, ``Comment on "Self-Trapping on a Dimer: time-dependent solutions of a discrete nonlinear Schr\"{o}dinger equation" '', Phys. Rev. B 37: 7896 (1988).

3. L. Cruzeiro, J. Halding, P.L. Christiansen, O. Skovgaard and A.C. Scott, ``Temperature effects on the Davydov soliton'', Phys. Rev. A 37: 880-887 (1988).

2. L. Cruzeiro and K.M.C. Da Silva, ``Towards an integrated view of biomembrane transport'', Spec. Science & Technol. 10: 13-25 (1987).

1. L. Cruzeiro and K.M.C. Da Silva, ``Characterization of an ion channel in
Active Transport'', Ciênc. Biol. 10: 49-61 (1985).

Peer Reviewed Conference Proceedings:

7. L. Cruzeiro-Hansson, ``What drives protein folding and protein function ? '', in Proceedings of the Third Conference on Localization and Energy Transfer in Nonlinear Systems, Eds. L. Vázquez, R.S. Mackay and M.P. Paz, World Scientific, New Jersey-Hong Kong, pp. 169-176 (2003).

6. L. Cruzeiro-Hansson, ``How do proteins work?'', in Proceedings of the First European Workshop on Exo-/Astro-Biology, Frascati, Italy, pp. 177-180 (2001).

5. L. Cruzeiro-Hansson and V.M. Kenkre, ``Exact two-quantum states of the semiclassical Davydov model and their thermal stability'', in Nonlinear Excitations in Biomolecules, Les Editions de Physique, Springer, Berlin-Tokyo, pp.269-277 (1995).

4. H.K. Feddersen, L. Cruzeiro-Hansson, R. Flesch, P.L. Christiansen, M. Salerno and A.C. Scott, ``Quantum and classical descriptions of chaos in the DST equation'', in "Davydov's soliton revisited: Self-Trapping of Vibrational Energy in Protein", eds. P.L. Christiansen and A.C. Scott, Plenum, N.Y. Ch.
43, 505-510 (1990).

3. L. Cruzeiro-Hansson, P.L. Christiansen and A.C. Scott, ``Thermal stability of the Davydov soliton'', in "Davydov's soliton revisited: Self-Trapping of Vibrational Energy in Protein", eds. P.L. Christiansen and A.C. Scott, Plenum, N.Y. Ch. 43, 325-335 (1990).

2. J.H. Ipsen, O.G. Mouritsen and L. Cruzeiro-Hansson,``Impurity-modulated interface formation in Lipid Bilayer Membranes near the chain melting phase transition'', in "Phase transitions in Soft Condensed Matter", eds. T.
Riste and D. Sherrington, Plenum Pub, N.Y., Ch. 41, 283-288, (1989).

1. L. Cruzeiro, P.L. Christiansen, J. Halding, O. Skovgaard and A.C. Scott, ``Temperature stability of Davydov solitons'', in ``Chaos in Biological Systems'', eds. H. Degn, A.V. Holden and L.F. Olsen, Plenum Press, Ch. 34, 315-319 (1987).

Other Contributions in Refereed Journals:

10. P.A.S. Silva and L. Cruzeiro, "Storage and conversion of energy by proteins", Eur. Biophys. J. 34, 625 (2005).

9. P.A.S. Silva and L. Cruzeiro, "How does a protein function ?", The FEBS J. 272, Suppl. 1,19 (2005).

8. L. Cruzeiro-Hansson and P.A.S. Silva, ``What kind of machines are proteins?'', European J. Biochemistry 268, Suppl.1, 184 (2001) (abstract).

7. L. Cruzeiro-Hansson, A. Crompton, S.M. Block, ``The molecular physics of biological movement - General discussion'', Phil. Trans. R. Soc. London B 355:  545 (2000).

6. L. Cruzeiro-Hansson, ``How F-o-ATPase generates rotary torque - Discussion'', Phil. Trans. R. Soc. London B 355: 528 (2000).

5. L. Cruzeiro-Hansson, ``The role of thermal activation in motion and
force generation by molecular motors - Discussion'', Phil. Trans. R. Soc. London B 355: 522 (2000).

4. L. Cruzeiro-Hansson, T. Yanagida, ``Single-motor mechanics and models of the myosin motor - Discussion'', Phil. Trans. R. Soc. London B 355: 447 (2000).

3. L. Cruzeiro-Hansson, ``Mechanics and models of the myosin motor - Discussion'', Phil. Trans. R. Soc. London B 355: 440 (2000).

2. L. Cruzeiro-Hansson, ``Proteins are Quantum Mechanical and Nonlinear
Machines'', Eur. Biophys. J. 26: 101 (1997) (Abstract).

1. Cruzeiro-Hansson, Faraday Discussions, No. 99, 199-215 (1994).

Invited Articles

2. L. Cruzeiro, ``The Davydov model for Energy Transfer in Proteins'', Encyclopedia of Nonlinear Science, A. Scott, Ed., Routledge, New York and London, 187-189 (2005).

1. L. Cruzeiro and K.M.C. Da Silva, ``Quantum Mechanical Model for Passive Transport through Bilayer Lipid Membranes'', in "Recent Advances in Biological Studies: Structure and Biogenesis, Oxidation and Energetics", ed. L. Packer, Plenum Press, Ch. 31, 165-178, (1985).

Other Publications

11. L. Cruzeiro-Hansson and P.A.S. Silva, ``Vibrational Energy Transfer and protein conformational changes'' in Book of Abstracts of the NATO Advanced Research Workshop ``Nonlinear Waves: Classical and Quantum Aspects'', Estoril, Portugal, Jul. 13-17, p. 17 (2003).

10. L.S. Brizhik, L. Cruzeiro-Hansson, A.A. Eremko, Yu. V. Olkhovska, ``Dynamical Properties of Davydov Solitons in Molecular Chains.'' in Book of Abstracts of the International Conference "Modern Problems of Theoretical Physics", Kyiv, Ukraine, Dec. 9-15, p. 56 (2002).

9. L. Brizhik, A. Eremko and L. Cruzeiro-Hansson, ``Soliton mechanism of electromagnetic bioeffects on charge and energy transport. II. Quasiresonance soliton dynamic response.'', in Proceedings of the IV EBEA Congress, Zagreb, Croatia, pp. 128-129 (1998).

8. A. Eremko, L. Brizhik and L.Cruzeiro-Hansson, ``Soliton mechanism of electromagnetic bioeffects on charge and energy transport. I. EMR induced decay of solitons.'', in Proceedings of the IV EBEA Congress, Zagreb, Croatia, pp. 127-128 (1998).

7. L. Cruzeiro-Hansson,``Short timescale energy transfer in proteins'', Proceedings of the conference on `Solitons and Coherent Structures in Physics and Biology (SOLPHYS)', Technical University of Denmark, Lyngby, Denmark, May 30 - June 3, (1997).

6. L. Cruzeiro-Hansson, "The Davydov model: lessons from dimers and N-mers", Proceedings of the conference `Nonlinear Coherent Structures in Physics and Biology', Heriot-Watt University, Edinburgh, Scotland (1995).

5. L. Cruzeiro-Hansson and V.M. Kenkre, ``Comment on the phase problem in thermodynamic averages of semiclassical systems'', in Computational Physics. Nonlinear dynamical phenomena in physical, chemical and biological systems, (P.L. Christiansen and E. Mosekilde, eds.), IMACS Lyngby, pp. 215-220 (1994).

4. J.M. Goodfellow, O. N. de Sousa, K. Parker and L. Cruzeiro-Hansson,
``Simulation of Biomolecular Systems'', in Computer Simulation of Biomolecular Systems: Theoretical and Experimental Applications, Van Gunsteren, Weiner and Wilkinson, eds., Escom, Leiden (1993).

3. M.F. Jörgensen, P.L. Christiansen, S. de Lillo and L. Cruzeiro-Hansson, ``Note on a complex Eckhaus equation'', in ``Chaotic Dynamics: Theory and Practice'', ed. T. Bountis, Plenum, Ch. 37, 71-73 (1992).

2. L. Cruzeiro-Hansson, J.O Baum and J.L. Finney, ``Electron states in static disordered systems and fluid systems", in the proceedings of the Europhysics Conference on Computational Physics, Amsterdam, The Netherlands, September 10-13 (1990).

1. J.O Baum and L. Cruzeiro-Hansson, ``Path Integral simulations of excess electrons in condensed matter'', in "Supercomputational Science", eds. R.G. Evans and S. Wilson, Plenum, N.Y (1990).

       
Faculdade de Ciências e Tecnologia Universidade do Algarve
Campus de Gambelas
8005-139 Faro, Portugal
Tel: +351 289 800 905
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E-Mail:lhansson@ualg.pt

Actualizado em 02-03-2009