Research Topics
Genomes and Genes | Ben CorrySummaryAffiliation: University of Western Australia Country: Australia Publications
| Collaborators
|
Detail Information
Publications
Mechanisms of valence selectivity in biological ion channelsB 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...- Determination of the orientational distribution and orientation factor for transfer between membrane-bound fluorophores using a confocal microscopeBen 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... - An energy-efficient gating mechanism in the acetylcholine receptor channel suggested by molecular and Brownian dynamicsBen 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... - Conformational changes involved in MscL channel gating measured using FRET spectroscopyBen 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... - A flexible approach to the calculation of resonance energy transfer efficiency between multiple donors and acceptors in complex geometriesBen 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.... - Electrostatic basis of valence selectivity in cationic channelsBen 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... - Understanding ion channel selectivity and gating and their role in cellular signallingBen Corry
School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley, WA 6009, Australia
Mol Biosyst 2:527-35. 2006.... - Influence of protein flexibility on the electrostatic energy landscape in gramicidin ABen 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... - Theoretical conformation of the closed and open states of the acetylcholine receptor channelBen 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... - Simulation of structure, orientation, and energy transfer between AlexaFluor molecules attached to MscLBen Corry
School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Crawley, Western Australia, Australia
Biophys J 95:2711-21. 2008.... - Computational study of the transmembrane domain of the acetylcholine receptorChen 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... - Ion conduction in ligand-gated ion channels: Brownian dynamics studies of four recent crystal structuresChen 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... - An improved open-channel structure of MscL determined from FRET confocal microscopy and simulationBen 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... - Mapping the importance of four factors in creating monovalent ion selectivity in biological moleculesMichael 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... - The predominant role of coordination number in potassium channel selectivityMichael Thomas
School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Crawley WA 6009, Australia
Biophys J 93:2635-43. 2007.... - ExiFRET: flexible tool for understanding FRET in complex geometriesEvelyne 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... - Bacterial mechanosensitive channels: experiment and theoryBen Corry
School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Crawley, WA 6008, Australia
Biochim Biophys Acta 1778:1859-70. 2008.... - Mechanism of ion permeation and selectivity in a voltage gated sodium channelBen 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... - Intrinsic ion selectivity of narrow hydrophobic poresChen 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... - Testing the applicability of Nernst-Planck theory in ion channels: comparisons with Brownian dynamics simulationsChen Song
School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Perth, Australia
PLoS ONE 6:e21204. 2011.... - Unraveling the relationship between structure and stabilization of triarylpyridines as G-quadruplex binding ligandsN 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.... - Designing carbon nanotube membranes for efficient water desalinationBen 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... - Testing the use of molecular dynamics to simulate fluorophore motions and FRETEvelyne Deplazes
School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia, Perth, Australia
Phys Chem Chem Phys 13:11045-54. 2011.... - Role of acetylcholine receptor domains in ion selectivityChen 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... - Structural Investigation of MscL Gating Using Experimental Data and Coarse Grained MD SimulationsEvelyne 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... - Computational study of methyl group dynamics in the hydroquinone clathrate of acetonitrileAlexandra Nemkevich
School of Biomedical, Biomolecular and Chemical Sciences, University of Western Australia, Perth, Australia
Phys Chem Chem Phys 14:1570-2. 2012.... - Mechanism of Concerted Hydrogen Bond Reorientation in Clathrates of Dianin's Compound and HydroquinoneAlexandra 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... - Redox control of calcium channels: from mechanisms to therapeutic opportunitiesLivia 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... - Molecular dynamics simulations of structure and dynamics of organic molecular crystalsAlexandra 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... - 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 spectraRasha 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... - Continuum electrostatics fails to describe ion permeation in the gramicidin channelScott 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... - Dielectric self-energy in Poisson-Boltzmann and Poisson-Nernst-Planck models of ion channelsBen 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... - Conduction mechanisms of chloride ions in ClC-type channelsBen 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... - A model of sodium channelsTaira 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... - The fast gating mechanism in ClC-0 channelsDavid 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... - Conduction properties of KcsA measured using brownian dynamics with flexible carbonyl groups in the selectivity filterShin 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... - Reservoir boundaries in Brownian dynamics simulations of ion channelsBen 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... - Brownian dynamics investigation into the conductance state of the MscS channel crystal structureTaira 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...