The Laboratory for Research on the Structure of Matter (LRSM)



2005 Publications

Primary & Partial Support, 2005

*acknowledges use of Shared Experimental Facilities

  • Loudet, J.C., Alsayed, A.M., Zhang, J., and Yodh, A.G., Capillary interactions between anisotropic colloidal particles. Physical Review Letters 94, 018301-1-018301-4 (2005).

  • Bryning, M.B., Islam, M.F., Kikkawa, J.M., and Yodh, A.G., Very low conductivity threshold in bulk isotropic single-walled carbon nanotube-epoxy composites. Advanced Materials 17, 1186-1191 (2005).

  • Alsayed, A.M., Islam, M.F., Zhang, J., Collings, P.J., Yodh, A.G., Premelting at defects within bulk colloidal crystals. Science 309, 1207-1210, (2005).

  • Islam MF, Milkie DE, Torrens ON, Yodh AG, Kikkawa JM Magnetic heterogeneity and alignment of single wall carbon nanotubes Physical Review B, Rapid Communications 71 (20): Article # 201401 (2005).

  • Johnston, D.E., Islam, M.F., Yodh, A.G., and Johnson, A.T., Electronic devices based on purified carbon nanotubes grown by high-pressure decomposition of carbonmonoxide. Nature Materials 4, 589-592 (2005).

  • M. B. Bryning, D. E. Milkie, M. F. Islam, J. M. Kikkawa, and A. G. Yodh, Thermal conductivity and interfacial resistance in single-wall carbon nanotube epoxy composites, Applied Physics Letters 87, 161909 (2005).

  • M. F. Islam, M. Nobili, Fangfu Ye, T. C. Lubensky, and A. G. Yodh, Cracks and Topological Defects in Lyotropic Nematic Gels, Physical Review Letters 95, 148301 (2005).

  • Adamian, L., Nanda, V., DeGrado, W. F. & Liang, J., “Empirical lipid propensities of amino acid residues in multispan alpha helical membrane proteins” Protein-Structure Function and Bioinformatics 59, 496-509  (2005).

  • Biancaniello, P. L., Kim, A. J., Crocker, J.C., “Colloidal interactions and self-assembly using DNA hybridization” Physical Review Letters 94, 058302 (2005).

  • Chikkannanavar, S.B., Paulson, S., Johnson, A.T., Luzzi , D.E., “Synthesis of peapods using substrate grown single-wall carbon nanotubes: An enabling step towards peapod devices” Nano Letters 5, 151-155 (2005).

  • Dalhaimer, P., Wagner, O., Leterrier, J-F, J anmey, P., Aranda-Espinoza, H. and Discher, D. E., “Flexibility transitions and looped adsorption of worm-like chains” Journal of Polymer Science B – Polymer Physics 43: 280-286(2005).

  • Discher, B. M., Noy, D., Strzalka, J., Ye, S. X., Moser, C. C., Lear, J. D., Blasie, J. K. and Dutton, P. L., “Design of amphiphilic protein maquettes: controlling assembly, membrane insertion and cofactor interactions” Biochemistry 44, 12329-12343 (2005).

  • Duong-Ly, K. C., Nanda, V., DeGrado, W. F. & Howard, K. P., “The conformation of the pore region of the M2 proton channel depends on lipid bilayer environment” Protein Sci 14, 856-61 (2005).

  • Georges, P.C. and Janmey, P. A., “Cell type-specific response to growth on soft materials” J Appl Physiol  98:1547-1553 (2005).

  • Grinberg, I. Suchohmel M. R., Davies, P. K., Rappe, A. M., “Predicting morphotropic phase boundary locations and transition temperatures in Pb- and Bi-based perovskite solid solutions from crystal chemical data and first-principles calculations” J. Applied Physics 98, 098411 (2005).

  • Kalinen, S. V., Shao, R. and Bonnell, D. A., “Local phenomena in oxides by advanced SPM” J. Amer. Ceramic Society 88, 1077-1098 (2005).

  • Kim, A. J., Manoharan, V.N., Crocker, J.C., “Swelling-based method for preparing stable, functionalized polymer colloids” Journal of the American Chemical Society Communications, 127, 1592-1593(2005).

  • Kuroda, K. & DeGrado, W. F., “Amphiphilic polymethacrylate derivatives as antimicrobial agents: J Am Chem Soc 127, 4128-9 (2005).

  • Moser, C. C., Osyczka, A. and Dutton, P. L., “Short-circuit proofing Mitchell’s Q cycle” in Photosynthesis:  Fundamental Aspects to Global Perspectives (van der Est. A and Bruce, D. eds) p. 427-430, Allen Press, Montreal, CA (2005).

  • Moser, C. C., Page, C. C. and Dutton, P. L., “Tunneling in PSII” Photochemical & Photobiological Sciences 4, 933-939 (2005).

  • Nanda, V. & DeGrado, W. F., “Automated use of mutagenesis data in structure prediction” Proteins 59, 454-66 (2005).

  • Noy, D.,  Discher, B. M. Rubtsov, I. V., Hochstrasser, R. A. and Dutton, P. L., “Design of amphiphilic protein maquettes: enhancing maquette functionality through binding of extremely hydrophobic cofactors to lipophilic domains” Biochemistry 44, 12344-12354 (2005).

  • Noy, D., Discher, B. M., and Dutton, P. L., “Design and synthesis of light energy harvesting proteins” in Energy Harvesting Materials (Andrews, D. L. Ed) p. 27-64, World Scientific Publishing Co. (2005).

  • Osyczka, A., Moser, C. C. and Dutton, P. L., “Fixing the Q cycle”  Trends in Biochemical Sciences 30, 176-182 (2005).

  • Park, S. and Saven, J.G., “Computationally assisted protein design” Annual Reports in Computational Chemistry (2005) . In press.

  • Park, S., Boder, E.T. and Saven , J.G., “Modulating the DNA affinity of Elk-1 with computationally selected mutations” The Journal of Molecular Biology 348, 75-83 (2005).

  • Park, S., Kono, H., Wang, W., Boder, E.T., and Saven, J.G., “Progress in the development and application of computational methods for probabilistic protein design” Computers & Chemical Engineering 29, 407-421 (2005).

  • Percec, V., Rudick, J. G., Peterca, M., Wagner, M., Obata, M, Mitchell, Y. C. M., Cho, W.-D., Balagurusamy, S. K. and Heiney, P. A., J. Am. Chem. Soc. 127, 15257-15264 (2005).

  • Peterson, R. W. and Wand, A. J., “Self contained high pressure cell, apparatus and procedure for the preparation of encapsulated proteins dissolved in low viscosity fluids for NMR spectroscopy” Rev. Sci. Instr. 76, Art. No. 094101 (2005).

  • Peterson, R. W., Lefebvre, B. G. and Wand, A. J., “High resolution NMR studies of encapsulated proteins in liquid ethane” J. Am. Chem. Soc. 127, 10176-10177 (2005).

  • Peterson, R. W., Pometun, M. S., Shi, Z., and Wand, A. J., “Novel surfactant mixtures for NMR spectroscopy of encapsulated proteins dissolved in low viscosity fluids” Prot. Sci. 14, 2919-2921 (2005).

  • Storm, C., Pastore, J. J., MacKintosh, F. C., Lubensky, T. C., and Janmey, P.A., “Nonlinear elasticity in biological gels” Nature 435:191-194 (2005).

  • Suchomel, M. R. and Davies, P. K., “Enhanced tetragonality in (x) PbTiO3 – (1-x) Bi(Zn 1/2Ti1/2)O3 and related solid solution systems” Applied Physics Lett. 86, 262905 (2005).

  • Tang, J.X., Wen, Q., Bennett, A., Kim, B., Sheils, C. A., Bucki, R. and Janmey, P. A.,  “Anionic poly(amino acid)s dissolve F-actin and DNA bundles, enhance DNase activity, and reduce the viscosity of cystic fibrosis sputum” Am J Physiol Lung Cell Mol Physiol 289:L599-605 (2005).

  • Tsai, J.-C. and Gollub, J. P. “Granular packings sheared in an annular channel: flow localization and grain size dependence” Phys. Rev. E 72, 051304 (2005).

  • Zhang, L. and Meggers , E., “An extremely stable and orthogonal DNA base pair with a simplified three-carbon backbone” J. A. C. S . 127, 74-75 (2005).

*acknowledges use of Shared Experimental Facilities

Shared Experimental Facilities, 2005

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Science Cover (8.19.05)
Science, 2005
A.M. Alsayed, A.G. Yodh, et al
The Laboratory for Research on the Structure of Matter
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