Nanoscale computational analysis for an idealized bio-molecular motor

Bulletin of the Polish Academy of Sciences: Technical Sciences

Volumn 53, Issue 4, 2005, Pages 405-412

  Pidaparti, R M ^a   Longest, P W ^a   Hsu, A T ^b   Akay, H U ^b  

^a Virginia Commonwealth University   (United States)

^b Indiana University Purdue University Indianapolis   (United States)

Author keywords

Atomic force microscopy; Design; Molecular motors; Nuclear pore complex; Simulation

Indexed keywords

ATOMIC FORCE MICROSCOPY; CELLS; COMPUTATIONAL FLUID DYNAMICS; COMPUTATIONAL METHODS; COMPUTER SIMULATION; DESIGN; FINITE DIFFERENCE METHOD; MATHEMATICAL MODELS; SUPRAMOLECULAR CHEMISTRY;

CYTOPLASMS; MOLECULAR MOTORS; NANOMACHINES; NUCLEAR PORE COMPLEX;

NANOSTRUCTURED MATERIALS;

EID: 31144454897     PISSN: 02397528     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (28)

1. N. Thomas and R.A. Thornhill, "The physics of biological molecular motors", J. BioPhysics 386, 253-266 (1998).
2. H.C. Taylor and M.E.J. Holwill, "Axonemal dynein - a natural molecular motor", J. Nanotechnology 10, 237-243 (1999).
3. C.W. Akey and M. Radmacher, "Architecture of the xenopus nuclear pore complex revealed by three-dimensional cryoelectron microscopy", J. Cell Biol. 122, 1-19 (1993).
4. N. Pante and U. Aebi, "Towards understanding the 3-D structure of the nuclear pore complex at the molecular level", Curr. Opin. Struct. Biol 4, 187-196 (1996).
5. C.W. Akey, "Interactions and structure of the nuclear pore complex revealed by cryo-electron microscopy", J. Cell Biol. 109, 955-970 (1989).
6. J.A. Hanover, "The nuclear pore at the crossroads", FASEB J. 4, 187-196 (1992).
7. N. Pante and U. Aebi, "Sequential binding of import ligands to distinct nucleopore regions during their nuclear import, Science 273, 1729-1732 (1996).
8. H.W. Wang and D.E. Clapham, "Conformational changes of the in situ nuclear pore complex", J. Biophysical 77(1), 241-247 (1999).
9. U.F Greber and L. Gerace, "Depletion of calcium from the lumen of endoplasmic reticulum reversibly inhibits passive diffusion and signal-mediated transport into the nucleus", J. Cell. Biol. 128, 5-14 (1995).
10. C. Perez-Terzic, J. Pyle, M. Jaconi, L. Stehno-Bittel, and D. Clapham, "Conformational states of the nuclear pore complex induced by depletion of nuclear Ca2+ stores", Science 273, 1875-1877 (1996).
11. C. Perez-Terzic, A.M. Gacy, R. Bortolon, P.P. Dzeja, M. Puceat, M. Jaconi, F.G. Prendergast, and C.A. Terzic, "Structural plasticity of the cardiac nuclear pore complex in response to regulators of nuclear import", Circ. Res. 84, 1292-1301 (1999).
12. C. Perez-Terzic, M. Jaconi, and D.E. Clapham, "Nuclear calcium and the regulation of the nuclear pore complex", BioEssays 19, 787-792 (1997).
13. L. Pemberton, G. Blobel, and J. Rosenblum, "Transport routes through the nuclear pore complex", Curr. Opin. Cell Biol. 10, 392-399 (1998).
14. T.M. Gant, M.W. Goldberg, and T.D. Allen, "Nuclear envelope and nuclear pore assembly, analysis of assembly intermediates by electron microscopy", Curr. Opin. Cell Biol. 10 (3), 409-15 (1998).
15. N. Pante and U. Aebi, "Molecular dissection of the nuclear pore complex", Critical Reviews in Biochemistry and Molecular Biology 31(2), 153-99 (1996).
16. D.D. Newmeyer, "The nuclear pore complex and nucleocytoplasmic transport", Curr. Opin. Cell Biol. 5(3), 395-407 (1993).
17. T.D. Allen, J.M. Cronshaw, S. Bagley, E. Kiseleva, and M.W. Goldberg, "The nuclear pore complex: mediator of translocation between nucleus and cytoplasm", J. Science 113, 1651-1659 (2000).
18. M.W. Goldberg and T.D. Allen, "The nuclear pore complex and lamina: three-dimensional structures and interactions determined by FEISEM", J. Mol. Biol. 257, 848-865 (1996).
19. M.W. Goldberg and T.D. Allen, "Structural and functional organization of the nuclear envelope", Curr. Opin. Cell Biol. 7, 301-309 (1995).
20. E. Kiseleva, M.W. Goldberg, T.D. Allen, and C.W. Akey, "Active nuclear pore complexes in Chironomus: visualization of transporter configurations related to mRNP export, J. Cell Science 111, 223-236 (1998).
21. P.W. Longest and C. Kleinstreuer, "Comparison of blood particle deposition models for non-paralell flow domains", J. Biomechanics 36(3), 421-430 (2003).
22. G.E. Karniadakis and A. Beskok, Microflows: Fundamentals and Simulation, Springer Verlag, New York, 2002.
23. M. Gad-el-Hak, The MEMS Handbook, CRC Press, New York, 2002.
24. J. Koo and C. Kleinstreuer, "Liquid flow in microchannels: experimetnal observations and computational analyses of mi crofluidics effects", J. Micromech. Microeng. 13, 568-579 (2003).
25. G.M. Mala and D. Li, "Flow characteristics of water in microtubes", International J. Heat and Fluid Flow 20, 142-148 (1999).
26. P.W. Longest, C. Kleinstreuer, and J.R. Buchanan, "Efficient computation of micro-particle dynamics including wall effects", Computers & Fluids 33 (4), 577-601 (2004).
27. R. Clift, J.R. Grace, and M.E. Weber, Bubbles, Drops, and Particles, Academic Press, New York, 1978.
28. C. Crowe, M. Sommerfeld, and Y. Tsuji, Multiphase Flows with Drops and Bubbles, CRC Press, Boca Raton, 1998.