Ben Corry

Summary

Affiliation: University of Western Australia
Country: Australia

Publications

  1. ncbi Mechanisms of valence selectivity in biological ion channels
    B Corry
    School of Biomedical and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
    Cell Mol Life Sci 63:301-15. 2006
  2. pmc A flexible approach to the calculation of resonance energy transfer efficiency between multiple donors and acceptors in complex geometries
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, Biomedical Imaging and Analysis Facility, The University of Western Australia, Crawley, Australia
    Biophys J 89:3822-36. 2005
  3. pmc An energy-efficient gating mechanism in the acetylcholine receptor channel suggested by molecular and Brownian dynamics
    Ben Corry
    Chemistry, School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
    Biophys J 90:799-810. 2006
  4. pmc Conformational changes involved in MscL channel gating measured using FRET spectroscopy
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Science, The University of Western Australia, Crawley, Australia
    Biophys J 89:L49-51. 2005
  5. pmc Determination of the orientational distribution and orientation factor for transfer between membrane-bound fluorophores using a confocal microscope
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, Australia
    Biophys J 91:1032-45. 2006
  6. ncbi Electrostatic basis of valence selectivity in cationic channels
    Ben Corry
    Chemistry, School of Biomedical and Chemical Sciences, The University of Western Australia, Crawley, WA, 6009, Australia
    Biochim Biophys Acta 1711:72-86. 2005
  7. ncbi Influence of protein flexibility on the electrostatic energy landscape in gramicidin A
    Ben Corry
    Chemistry, School of Biomedical and Chemical Sciences, The University of Western Australia Crawley, WA 6009, Australia
    Eur Biophys J 34:208-16. 2005
  8. ncbi Theoretical conformation of the closed and open states of the acetylcholine receptor channel
    Ben Corry
    Department of Chemistry, University of Western Australia, Crawley, WA 6009, Australia
    Biochim Biophys Acta 1663:2-5. 2004
  9. ncbi Understanding ion channel selectivity and gating and their role in cellular signalling
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
    Mol Biosyst 2:527-35. 2006
  10. pmc Simulation of structure, orientation, and energy transfer between AlexaFluor molecules attached to MscL
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Crawley, Western Australia, Australia
    Biophys J 95:2711-21. 2008

Collaborators

Detail Information

Publications39

  1. ncbi Mechanisms of valence selectivity in biological ion channels
    B Corry
    School of Biomedical and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
    Cell Mol Life Sci 63:301-15. 2006
    ..Not surprisingly, electrostatic considerations have been shown to play an important role in ion specificity, although many details of the origins of this discrimination remain to be determined...
  2. pmc A flexible approach to the calculation of resonance energy transfer efficiency between multiple donors and acceptors in complex geometries
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, Biomedical Imaging and Analysis Facility, The University of Western Australia, Crawley, Australia
    Biophys J 89:3822-36. 2005
    ....
  3. pmc An energy-efficient gating mechanism in the acetylcholine receptor channel suggested by molecular and Brownian dynamics
    Ben Corry
    Chemistry, School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
    Biophys J 90:799-810. 2006
    ..The channel is posited to utilize an energy efficient gating mechanism in which only minor conformational changes of the hydrophobic region of the pore are required to create macroscopic changes in conductance...
  4. pmc Conformational changes involved in MscL channel gating measured using FRET spectroscopy
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Science, The University of Western Australia, Crawley, Australia
    Biophys J 89:L49-51. 2005
    ..The diameter of the protein is found to increase by 16 A upon channel activation...
  5. pmc Determination of the orientational distribution and orientation factor for transfer between membrane-bound fluorophores using a confocal microscope
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, Australia
    Biophys J 91:1032-45. 2006
    ..We illustrate the method using images of AlexaFluor probes bound to MscL mechanosensitive transmembrane channel proteins in spherical liposomes...
  6. ncbi Electrostatic basis of valence selectivity in cationic channels
    Ben Corry
    Chemistry, School of Biomedical and Chemical Sciences, The University of Western Australia, Crawley, WA, 6009, Australia
    Biochim Biophys Acta 1711:72-86. 2005
    ..On the other hand, the calcium channel binds them less strongly such that they can be destabilized by the repulsion of another incoming divalent ion, but not by the lesser repulsion from monovalent ions...
  7. ncbi Influence of protein flexibility on the electrostatic energy landscape in gramicidin A
    Ben Corry
    Chemistry, School of Biomedical and Chemical Sciences, The University of Western Australia Crawley, WA 6009, Australia
    Eur Biophys J 34:208-16. 2005
    ..Thus, even when protein atoms are allowed to move, the dielectric model used in our electrostatic calculations breaks down when modeling the gramicidin channel...
  8. ncbi Theoretical conformation of the closed and open states of the acetylcholine receptor channel
    Ben Corry
    Department of Chemistry, University of Western Australia, Crawley, WA 6009, Australia
    Biochim Biophys Acta 1663:2-5. 2004
    ..A hypothesised open state consistent with a lower resolution image is created and shown to have high conductance...
  9. ncbi Understanding ion channel selectivity and gating and their role in cellular signalling
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
    Mol Biosyst 2:527-35. 2006
    ....
  10. pmc Simulation of structure, orientation, and energy transfer between AlexaFluor molecules attached to MscL
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Crawley, Western Australia, Australia
    Biophys J 95:2711-21. 2008
    ....
  11. doi Computational study of the transmembrane domain of the acetylcholine receptor
    Chen Song
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
    Eur Biophys J 38:961-70. 2009
    ..An electrostatic gating mechanism is also proposed from our simulations, which seems to play a role in addition to the well-known hydrophobic effect...
  12. pmc Ion conduction in ligand-gated ion channels: Brownian dynamics studies of four recent crystal structures
    Chen Song
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, Western Australia
    Biophys J 98:404-11. 2010
    ..The extracellular domain of the channel is shown to have an important influence on the channel current, but a less significant role in ion selectivity...
  13. pmc Structural investigation of MscL gating using experimental data and coarse grained MD simulations
    Evelyne Deplazes
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Perth, Australia
    PLoS Comput Biol 8:e1002683. 2012
    ..This previously unobserved structural change might present a new mechanism of tension sensing and might be related to a functional role in osmoregulation...
  14. pmc The predominant role of coordination number in potassium channel selectivity
    Michael Thomas
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley WA 6009, Australia
    Biophys J 93:2635-43. 2007
    ....
  15. pmc An improved open-channel structure of MscL determined from FRET confocal microscopy and simulation
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley WA, Australia
    J Gen Physiol 136:483-94. 2010
    ..Combining FRET data obtained in physiological conditions with simulations is likely to be of great value for studying conformational changes in a range of multimeric membrane proteins...
  16. pmc Mapping the importance of four factors in creating monovalent ion selectivity in biological molecules
    Michael Thomas
    School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Crawley, Western Australia, Australia
    Biophys J 100:60-9. 2011
    ..In the future, our maps could aid in the determination of the local structure from binding energies and assist in the design of novel ion selective molecules...
  17. doi Simulations of guest transport in clathrates of Dianin's compound and hydroquinone
    Alexandra Nemkevich
    School of Chemistry and Biochemistry, University of Western Australia, Australia
    Chemistry 19:2676-84. 2013
    ..We found that this is likely to be temperature dependent and suggest that under some conditions the system is most likely non-stoichiometric...
  18. doi ExiFRET: flexible tool for understanding FRET in complex geometries
    Evelyne Deplazes
    University of Western Australia, School of Biomedical, Biomolecular and Chemical Sciences, Perth, Australia
    J Biomed Opt 17:011005. 2012
    ..We also present an extension that can be used to study instances in which fluorophores have constrained orientations...
  19. ncbi Bacterial mechanosensitive channels: experiment and theory
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Crawley, WA 6008, Australia
    Biochim Biophys Acta 1778:1859-70. 2008
    ....
  20. doi Mechanism of ion permeation and selectivity in a voltage gated sodium channel
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, WA 6009 Australia
    J Am Chem Soc 134:1840-6. 2012
    ..These mechanisms are different to those described for K(+) channels, highlighting the importance of developing a separate mechanistic understanding of Na(+) and Ca(2+) channels...
  21. doi Intrinsic ion selectivity of narrow hydrophobic pores
    Chen Song
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
    J Phys Chem B 113:7642-9. 2009
    ..In addition, "hydrophobic gating" can arise in continuous water-filled pores...
  22. doi Designing carbon nanotube membranes for efficient water desalination
    Ben Corry
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, Western Australia, 6009 Australia
    J Phys Chem B 112:1427-34. 2008
    ..By measuring this conduction rate under a hydrostatic pressure difference, we show that membranes incorporating carbon nanotubes can, in principle, achieve a high degree of desalination at flow rates far in excess of existing membranes...
  23. doi Unraveling the relationship between structure and stabilization of triarylpyridines as G-quadruplex binding ligands
    N M Smith
    Centre for Strategic Nano Fabrication, School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
    Org Biomol Chem 9:6154-62. 2011
    ....
  24. pmc Testing the applicability of Nernst-Planck theory in ion channels: comparisons with Brownian dynamics simulations
    Chen Song
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Perth, Australia
    PLoS ONE 6:e21204. 2011
    ....
  25. doi Role of acetylcholine receptor domains in ion selectivity
    Chen Song
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley WA 6009, Australia
    Biochim Biophys Acta 1788:1466-73. 2009
    ..These new results complement our understanding about the ion conduction and selectivity mechanism of nAChR...
  26. doi Testing the use of molecular dynamics to simulate fluorophore motions and FRET
    Evelyne Deplazes
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Perth, Australia
    Phys Chem Chem Phys 13:11045-54. 2011
    ....
  27. ncbi Computational study of methyl group dynamics in the hydroquinone clathrate of acetonitrile
    Alexandra Nemkevich
    School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Perth, Australia
    Phys Chem Chem Phys 14:1570-2. 2012
    ....
  28. doi Mechanism of concerted hydrogen bond reorientation in clathrates of Dianin's compound and hydroquinone
    Alexandra Nemkevich
    School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Perth, Australia
    J Am Chem Soc 133:18880-8. 2011
    ..This is attributed to the larger difference in energy between the original and reoriented positions of hydroxyl hydrogen atoms in HQ:methanol compared to DC:ethanol...
  29. doi Molecular dynamics simulations of structure and dynamics of organic molecular crystals
    Alexandra Nemkevich
    School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Perth, Australia
    Phys Chem Chem Phys 12:14916-29. 2010
    ..It is important to compare the outcomes from simulations with as many experimental quantities as available before using them to study or quantify crystal properties not available from experiment...
  30. pmc Determination of the kinetic profile of a dinuclear platinum anticancer complex in the presence of sulfate: introducing a new tool for the expedited analysis of 2D [(1)H,( 15)N] HSQC NMR spectra
    Rasha A Ruhayel
    School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, 35 Stirling Highway, Crawley, WA 6009, Australia
    Inorg Chem 49:10815-9. 2010
    ..We have found that this plug-in significantly reduces the amount of time taken in the analysis of experiments with no loss to the quality of the data...
  31. ncbi Redox control of calcium channels: from mechanisms to therapeutic opportunities
    Livia C Hool
    Discipline of Physiology, School of Biomedical, Biomolecular, and Chemical Sciences, The University of Western Australia, Crawley, Western Australia
    Antioxid Redox Signal 9:409-35. 2007
    ..Understanding how redox modification of the channel protein alters channel structure and function is providing leads for the design of therapeutic interventions that target oxidative stress responses...
  32. pmc Dielectric self-energy in Poisson-Boltzmann and Poisson-Nernst-Planck models of ion channels
    Ben Corry
    Department of Theoretical Physics, Research School of Physical Sciences, Australian National University, Canberra, Australia
    Biophys J 84:3594-606. 2003
    ..Thus, further work is required if these continuum theories are to be reliably salvaged for quantitative studies of biological ion channels in all situations...
  33. pmc Continuum electrostatics fails to describe ion permeation in the gramicidin channel
    Scott Edwards
    Protein Dynamics Unit, Department of Physics, Faculty of Science, Australian National University, Canberra, A C T 0200, Australia
    Biophys J 83:1348-60. 2002
    ..They also offer a convenient starting point for studying structure-function relationships in modified gramicidin channels...
  34. pmc Conduction properties of KcsA measured using brownian dynamics with flexible carbonyl groups in the selectivity filter
    Shin Ho Chung
    Research School of Biological Sciences, Australian National University, Canberra, Australia
    Biophys J 93:44-53. 2007
    ..The method we utilized here can be extended to allow the movement of glutamate or aspartate side chains lining the selectivity filters of other ionic channels...
  35. pmc Conduction mechanisms of chloride ions in ClC-type channels
    Ben Corry
    Department of Theoretical Physics, Research School of Physical Sciences, The Australian National University, Canberra, Australia
    Biophys J 86:846-60. 2004
    ..Finally, we demonstrate that a ClC-0 homology model created from an alternative sequence alignment fails to replicate any of the experimental observations...
  36. ncbi A model of sodium channels
    Taira Vora
    Department of Theoretical Physics, Research School of Physical Sciences, Australian National University, Canberra, A C T 0200, Australia
    Biochim Biophys Acta 1668:106-16. 2005
    ..Our model closely reproduces a range of experimental data including the current-voltage curves, current-concentration curves and blockage of monovalent ions by divalent ions...
  37. pmc The fast gating mechanism in ClC-0 channels
    David Bisset
    Department of Theoretical Physics, Research School of Physical Sciences, The Australian National University, Canberra, Australia
    Biophys J 89:179-86. 2005
    ..Finally, we use Brownian dynamics simulations to demonstrate the influence of membrane potential and external Cl- concentration on channel open probability...
  38. pmc Reservoir boundaries in Brownian dynamics simulations of ion channels
    Ben Corry
    Department of Theoretical Physics, Research School of Physical Sciences, Australian National University, Canberra, Australian Capital Territory 0200, Australia
    Biophys J 82:1975-84. 2002
    ..Our results confirm that the treatment of the reservoir boundaries is mostly irrelevant to the conductance properties of an ion channel as long as the reservoirs are large enough...
  39. ncbi Brownian dynamics investigation into the conductance state of the MscS channel crystal structure
    Taira Vora
    Department of Theoretical Physics, Research School of Physical Sciences, The Australian National University, Canberra, A C T 0200, Australia
    Biochim Biophys Acta 1758:730-7. 2006
    ..Widening the hydrophobic region of the pore by 2.5 Angstrom however, increases the channel conductance to over 200 pS suggesting that only a minimal conformational change is required to gate the pore...