John F Nagle

Summary

Affiliation: Carnegie Mellon University
Country: USA

Publications

  1. pmc Structure of gel phase DMPC determined by X-ray diffraction
    Stephanie Tristram-Nagle
    Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA 15213 USA
    Biophys J 83:3324-35. 2002
  2. pmc Introductory lecture: basic quantities in model biomembranes
    John F Nagle
    Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Faraday Discuss 161:11-29; discussion 113-50. 2013
  3. pmc Theory of passive permeability through lipid bilayers
    John F Nagle
    Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    J Gen Physiol 131:77-85. 2008
  4. pmc Order parameters and areas in fluid-phase oriented lipid membranes using wide angle X-ray scattering
    Thalia T Mills
    Department of Physics, Cornell University, Ithaca, New York 14853, USA
    Biophys J 95:669-81. 2008
  5. pmc Temperature dependence of structure, bending rigidity, and bilayer interactions of dioleoylphosphatidylcholine bilayers
    Jianjun Pan
    Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
    Biophys J 94:117-24. 2008
  6. pmc Structure of fully hydrated fluid phase DMPC and DLPC lipid bilayers using X-ray scattering from oriented multilamellar arrays and from unilamellar vesicles
    Norbert Kucerka
    Physics Department, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Biophys J 88:2626-37. 2005
  7. ncbi request reprint Anomalous swelling of lipid bilayer stacks is caused by softening of the bending modulus
    Nanjun Chu
    Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
    Phys Rev E Stat Nonlin Soft Matter Phys 71:041904. 2005
  8. pmc Cholesterol perturbs lipid bilayers nonuniversally
    Jianjun Pan
    Physics Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Phys Rev Lett 100:198103. 2008
  9. pmc HIV fusion peptide penetrates, disorders, and softens T-cell membrane mimics
    Stephanie Tristram-Nagle
    Biological Physics Group, Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    J Mol Biol 402:139-53. 2010
  10. pmc Alamethicin aggregation in lipid membranes
    Jianjun Pan
    Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    J Membr Biol 231:11-27. 2009

Collaborators

Detail Information

Publications37

  1. pmc Structure of gel phase DMPC determined by X-ray diffraction
    Stephanie Tristram-Nagle
    Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA 15213 USA
    Biophys J 83:3324-35. 2002
    ..2 +/- 0.5 A(2)), the compressibility modulus (K(A) = 500 +/- 100 dyn/cm), various thicknesses, such as the hydrocarbon thickness (2D(C) = 30.3 +/- 0.2 A), and the head-to-head spacing (D(HH) = 40.1 +/- 0.1 A)...
  2. pmc Introductory lecture: basic quantities in model biomembranes
    John F Nagle
    Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Faraday Discuss 161:11-29; discussion 113-50. 2013
    ..Finally, attention is called to contributions that add relevant biological molecules to bilayers and to contributions that study the exciting shape changes and different non-bilayer structures with different lipids...
  3. pmc Theory of passive permeability through lipid bilayers
    John F Nagle
    Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    J Gen Physiol 131:77-85. 2008
    ..The theory is fit to the recent experiments on water permeability in the accompanying paper...
  4. pmc Order parameters and areas in fluid-phase oriented lipid membranes using wide angle X-ray scattering
    Thalia T Mills
    Department of Physics, Cornell University, Ithaca, New York 14853, USA
    Biophys J 95:669-81. 2008
    ....
  5. pmc Temperature dependence of structure, bending rigidity, and bilayer interactions of dioleoylphosphatidylcholine bilayers
    Jianjun Pan
    Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
    Biophys J 94:117-24. 2008
    ....
  6. pmc Structure of fully hydrated fluid phase DMPC and DLPC lipid bilayers using X-ray scattering from oriented multilamellar arrays and from unilamellar vesicles
    Norbert Kucerka
    Physics Department, Carnegie Mellon University, Pittsburgh, Pennsylvania, USA
    Biophys J 88:2626-37. 2005
    ..Various thicknesses, such as the hydrophobic thickness and the steric thickness, are obtained and compared to literature values...
  7. ncbi request reprint Anomalous swelling of lipid bilayer stacks is caused by softening of the bending modulus
    Nanjun Chu
    Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
    Phys Rev E Stat Nonlin Soft Matter Phys 71:041904. 2005
    ..We also report Monte Carlo simulations that show that the anomalous swelling can be fully accounted for by the measured decrease in K(C) with no changes in the van der Waals or hydration forces...
  8. pmc Cholesterol perturbs lipid bilayers nonuniversally
    Jianjun Pan
    Physics Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Phys Rev Lett 100:198103. 2008
    ..Most strikingly, cholesterol strongly increases K(C) when both chains of the phospholipid are fully saturated but not at all when there are two monounsaturated chains...
  9. pmc HIV fusion peptide penetrates, disorders, and softens T-cell membrane mimics
    Stephanie Tristram-Nagle
    Biological Physics Group, Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    J Mol Biol 402:139-53. 2010
    ..Our results are consistent with the HIV FP disordering and softening the T-cell membrane, thereby lowering the activation energy for viral membrane fusion...
  10. pmc Alamethicin aggregation in lipid membranes
    Jianjun Pan
    Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    J Membr Biol 231:11-27. 2009
    ..As the relative humidity was reduced, interactions between Alm in neighboring bilayers produced more peaks with three-dimensional crystallographic character that do not index with the conventional hexagonal space groups...
  11. pmc Effects of ether vs. ester linkage on lipid bilayer structure and water permeability
    S Deren Guler
    Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Chem Phys Lipids 160:33-44. 2009
    ..Our measurement of water permeability, P(f)=0.022cm/s at 48 degrees C for fluid phase DHPC is slightly smaller than that of DPPC (P(f)=0.027cm/s) at 50 degrees C, consistent with our triple slab theory of permeability...
  12. pmc CRAC motif peptide of the HIV-1 gp41 protein thins SOPC membranes and interacts with cholesterol
    Alexander I Greenwood
    Biological Physics Group, Physics Department, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213, USA
    Biochim Biophys Acta 1778:1120-30. 2008
    ..Both peptides nucleate crystals of cholesterol, but the LWYIK-induced crystals are weaker and dissolve more easily...
  13. pmc Alamethicin in lipid bilayers: combined use of X-ray scattering and MD simulations
    Jianjun Pan
    Biological Physics Group, Physics Department, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213, USA
    Biochim Biophys Acta 1788:1387-97. 2009
    ..The van der Waals and fluctuational interactions between bilayers are also evaluated through determination of the anisotropic B compressibility modulus...
  14. pmc Effect of cholesterol on structural and mechanical properties of membranes depends on lipid chain saturation
    Jianjun Pan
    Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
    Phys Rev E Stat Nonlin Soft Matter Phys 80:021931. 2009
    ..The above experimental results were obtained from analysis of x-ray scattering in the low angle and wide angle regions...
  15. pmc Structure and water permeability of fully hydrated diphytanoylPC
    Stephanie Tristram-Nagle
    Biological Physics Group, Physics, Carnegie Mellon University, Pittsburgh, PA 15213, United States
    Chem Phys Lipids 163:630-7. 2010
    ..2+/-0.5x10(-21)J) was 30% smaller. Our results suggest that, from the biophysical perspective, DPhyPC belongs to a different family of lipids than phosphatidylcholines that have linear chain hydrocarbon chains...
  16. pmc Liquid-liquid domains in bilayers detected by wide angle X-ray scattering
    Thalia T Mills
    Department of Physics, Cornell University, Ithaca, New York 14853, USA
    Biophys J 95:682-90. 2008
    ..This is consistent with the sensitivity of WAXS to very short time and length scales, which makes it more capable of detecting small, short-lived domains that are likely close to T(mix)...
  17. pmc Effects of cholesterol and unsaturated DOPC lipid on chain packing of saturated gel-phase DPPC bilayers
    Thalia T Mills
    Department of Physics, Carnegie Mellon University, Pittsburgh, Pensylvania 15213, U S A
    Gen Physiol Biophys 28:126-39. 2009
    ..Our WAXS data include a huge amount of information. A new method of analysis suggests that WAXS data may provide definitive results relating to the disagreements between previously published phase diagrams for Chol/DPPC...
  18. pmc Thermodynamic and structural characterization of amino acid-linked dialkyl lipids
    Stephanie Tristram-Nagle
    Department of Biological Sciences, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213, USA
    Chem Phys Lipids 134:29-39. 2005
    ..2A(2)/4 chains, with a distorted orthorhombic unit subcell, a=9.0A, b=4.3A and beta=92.7 degrees . As the chain length n increases, subgel formation is slowed, but untilted, interdigitated chains prevail...
  19. pmc Closer look at structure of fully hydrated fluid phase DPPC bilayers
    Norbert Kucerka
    Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Biophys J 90:L83-5. 2006
    ....
  20. ncbi request reprint Structure of fully hydrated fluid phase lipid bilayers with monounsaturated chains
    Norbert Kucerka
    Physics Department, Carnegie Mellon University, Pittsburgh, Pennsylvania, 15213, USA
    J Membr Biol 208:193-202. 2005
    ..Our results suggest that lipids with one monounsaturated chain have quantitative bilayer structures closer to lipids with two monounsaturated chains than to lipids with two completely saturated chains...
  21. pmc Orientation of tie-lines in the phase diagram of DOPC/DPPC/cholesterol model biomembranes
    Pradeep Uppamoochikkal
    Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, United States
    Langmuir 26:17363-8. 2010
    ..Although this method does not obtain the ends of the tie-lines, it gives precise values (±1°) of their angles α in the ternary phase diagram...
  22. pmc Structure and elasticity of lipid membranes with genistein and daidzein bioflavinoids using X-ray scattering and MD simulations
    Mohit Raghunathan
    Physics Department, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, United States
    J Phys Chem B 116:3918-27. 2012
    ..20 mol fraction in both lipid membranes. Measurements of bending modulus K(C) and simulation results for area compressibility modulus K(A) indicate that both bioflavinoids soften bilayers...
  23. pmc Diffuse scattering provides material parameters and electron density profiles of biomembranes
    Yufeng Liu
    Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
    Phys Rev E Stat Nonlin Soft Matter Phys 69:040901. 2004
    ..8 A(-1). The electron density profile rho(z) is obtained by fitting models to F( q(z) ). Constraining the models to conform to other measurements provides structural quantities such as area A=72.1+/-0.5 A(2) per lipid at the interface...
  24. ncbi request reprint Models to analyze small-angle neutron scattering from unilamellar lipid vesicles
    Norbert Kucerka
    Physics Department, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, Pennsylvania 15213, USA
    Phys Rev E Stat Nonlin Soft Matter Phys 69:051903. 2004
    ..The analysis supports the proposition that reliable results for area/lipid and hydrocarbon thickness can be obtained from small-angle neutron scattering of unilamellar vesicles...
  25. pmc Partial molecular volumes of lipids and cholesterol
    Alexander I Greenwood
    Biological Physics Group, Physics Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Chem Phys Lipids 143:1-10. 2006
    ....
  26. pmc HIV-1 fusion peptide decreases bending energy and promotes curved fusion intermediates
    Stephanie Tristram-Nagle
    Biological Physics Group, Department of Physics, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Biophys J 93:2048-55. 2007
    ....
  27. pmc Lipid bilayers: thermodynamics, structure, fluctuations, and interactions
    Stephanie Tristram-Nagle
    Departments of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Chem Phys Lipids 127:3-14. 2004
    ..This allows us to use fully hydrated lipid samples, as in vivo, to obtain the structure...
  28. pmc Volumetric stability of lipid bilayers
    Kelsey M Hallinen
    Biological Physics Group, Physics Department, Carnegie Mellon University, Pittsburgh, PA 15213, USA
    Phys Chem Chem Phys 14:15452-7. 2012
    ..Remixing the lipid in the densimeter shows that the apparent volume decrease is an artifact. We conclude that gel phase DPPC bilayers exist in a volumetrically stable phase...
  29. pmc Membrane Structure Correlates to Function of LLP2 on the Cytoplasmic Tail of HIV-1 gp41 Protein
    Alexander L Boscia
    Biological Physics Group, Physics Department, Carnegie Mellon University, Pittsburgh, Pennsylvania
    Biophys J 105:657-66. 2013
    ..It shows that interaction of LLP2 with the T-cell membrane modulates biological function. ..
  30. ncbi request reprint Comment on "An apparent general solution for the kinetic models of the bacteriorhodopsin photocycles"
    Richard H Lozier
    Department of Physics, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
    J Phys Chem B 110:15041-2; discussion 15043-4. 2006
  31. pmc Lipid bilayer structure determined by the simultaneous analysis of neutron and X-ray scattering data
    Norbert Kucerka
    Canadian Neutron Beam Centre, National Research Council, Chalk River, Ontario K0J 1J0, Canada
    Biophys J 95:2356-67. 2008
    ....
  32. pmc Curvature effect on the structure of phospholipid bilayers
    Norbert Kucerka
    Canadian Neutron Beam Centre, National Research Council, Chalk River, Ontario K0J 1J0, Canada
    Langmuir 23:1292-9. 2007
    ..However, 1220-A-diameter pure DOPS ULVs form asymmetric bilayers whose structure can most likely be rationalized in terms of geometrical constraints coupled with electrostatic interactions, rather than curvature alone...
  33. pmc Simulation-based methods for interpreting x-ray data from lipid bilayers
    Jeffery B Klauda
    Laboratory of Computational Biology, National Institutes of Health, Bethesda, Maryland 20892, USA
    Biophys J 90:2796-807. 2006
    ..This approach is independent of structural models and could be used to determine structural properties of bilayers with different lipids, cholesterol, and peptides...
  34. pmc Swelling of phospholipids by monovalent salt
    Horia I Petrache
    Laboratory of Physical and Structural Biology, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892 0924, USA
    J Lipid Res 47:302-9. 2006
    ..By weakening van der Waals attractions, salt increases energy barriers to membrane contact, possibly affecting cellular communication and biological signaling...
  35. pmc Areas of molecules in membranes consisting of mixtures
    Olle Edholm
    Theoretical Biological Physics, Royal Institute of Technology, Stockholm, Sweden
    Biophys J 89:1827-32. 2005
    ....
  36. pmc Structure and fluctuations of charged phosphatidylserine bilayers in the absence of salt
    Horia I Petrache
    Laboratory of Physical and Structural Biology, The National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, Maryland 20892, USA
    Biophys J 86:1574-86. 2004
    ..Our comparisons between bilayers of PS and PC lipids with the same chains and the same temperature enable us to focus on the effects of these headgroups on bilayer properties...
  37. pmc Structural determinants of water permeability through the lipid membrane
    John C Mathai
    Department of Medicine, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02215, USA
    J Gen Physiol 131:69-76. 2008
    ..The water permeability decreases with added cholesterol and it correlates in a different way from pure lipids with area per lipid, bilayer thickness, and also with area compressibility...