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Molecular Biosciences: Recent submissions
Now showing items 521-540 of 887
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Voltage-dependent behavior of a "ball-and-chain" gramicidin channel
(The Biophysical Society, 1997-11)The channel-forming properties of two analogs of gramicidin, gramicidin-ethylenediamine (gram-EDA), and gramicidin-N,N-dimethylethylenediamine (gram-DMEDA) were studied in planar lipid bilayers, using protons as the permeant ... -
Evidence for a fence that impedes the diffusion of phosphatidylinositol 4,5-bisphosphate out of the forming phagosomes of macrophages
(The American Society of Cell Biology, 2011-09-15)To account for the many functions of phosphatidylinositol 4,5-bisphosphate (PIP2), several investigators have proposed that there are separate pools of PIP2 in the plasma membrane. Recent experiments show the surface ... -
Implicit solvation based on generalized Born theory in different dielectric environments
(American Institute of Physics, 2004)In this paper we are investigating the effect of the dielectric environment on atomic Born radii used in generalized Born (GB) methods. Motivated by the Kirkwood expression for the reaction field of a single off-center ... -
Electrostatic free energy calculations using the generalized solvent boundary potential method
(American Institute of Physics, 2002)Free energyperturbation (FEP) calculations using all-atom molecular dynamics simulations with a large number of explicit solvent molecules are a powerful approach to study ligand–macromolecule association processes at the ... -
Telomere position effect is regulated by heterochromatin associated proteins and NkuA in Aspergillus nidulans
(Hindawi Publishing Corporation, 2010-12-01)Gene-silencing mechanisms are being shown to be associated with an increasing number of fungal developmental processes. Telomere position effect (TPE) is a eukaryotic phenomenon resulting in gene repression in areas ... -
γ-Tubulin Plays an Essential Role in the Coordination of Mitotic Events
(American Society for Cell Biology, 2004-03-01)Recent data from multiple organisms indicate that γ-tubulin has essential, but incompletely defined, functions in addition to nucleating microtubule assembly. To investigate these functions, we examined the phenotype of ... -
TINA interacts with the NIMA kinase in Aspergillus nidulans and negatively regulates astral microtubules during metaphase arrest
(American Society for Cell Biology, 2003-08-01)The tinA gene of Aspergillus nidulans encodes a protein that interacts with the NIMA mitotic protein kinase in a cell cycle-specific manner. Highly similar proteins are encoded in Neurospora crassa and Aspergillus fumigatus. ... -
Spindle formation in Aspergillus is coupled to tubulin movement into the nucleus
(American Society for Cell Biology, 2003-05-01)In many important organisms, including many algae and most fungi, the nuclear envelope does not disassemble during mitosis. This fact raises the possibility that mitotic onset and/or exit might be regulated, in part, by ... -
Microtubule organization requires cell-cycle dependent nucleation at dispersed cytoplasmic sites, polar and perinuclear MTOCs in the plant pathogen Ustilago maydis
(American Society for Cell Biology, 2003-02-01)Growth of most eukaryotic cells requires directed transport along microtubules (MTs) that are nucleated at nuclear-associated microtubule organizing centers (MTOCs), such as the centrosome and the fungal spindle pole body ... -
γ-Tubulin and the C-terminal motor domain kinesin-like protein, KLPA, function in the establishment of spindle bipolarity in Aspergillus nidulans
(American Society for Cell Biology, 2001-10-01)Previous research has found that a γ-tubulin mutation inSchizosaccharomyces pombe is synthetically lethal with a deletion of the C-terminal motor domain kinesin-like protein genepkl1, but the lethality of the double mutant ... -
Brownian dynamics simulations of ions channels: A general treatment of electrostatic reaction fields for molecular pores of arbitrary geometry
(American Institute of Physics, 2001)A general method has been developed to include the electrostatic reaction field in Brownian dynamics (BD) simulations of ions diffusing through complex molecular channels of arbitrary geometry. Assuming that the solvent ... -
Generalized solvent boundary potential for computer simulations
(American Institute of Physics, 2001)A general approach has been developed to allow accurate simulations of a small region part of a large macromolecular system while incorporating the influence of the remaining distant atoms with an effective boundary ... -
NMR Observable-Based Structure Refinement of DAP12-NKG2C Activating Immunoreceptor Complex in Explicit Membranes
(Elsevier, 2012-04-04)NMR observables, such as NOE-based distance measurements, are increasingly being used to characterize membrane protein structures. However, challenges in membrane protein NMR studies often yield a relatively small number ... -
Influence of Hydrophobic Mismatch on Structures and Dynamics of Gramicidin A and Lipid Bilayers
(Elsevier, 2012-04-04)Gramicidin A (gA) is a 15-amino-acid antibiotic peptide with an alternating L-D sequence, which forms (dimeric) bilayer-spanning, monovalent cation channels in biological membranes and synthetic bilayers. We performed ... -
Membrane Tension, Lipid Adaptation, Conformational Changes, and Energetics in MscL Gating
(Elsevier, 2011-08-03)This study aims to explore gating mechanisms of mechanosensitive channels in terms of membrane tension, membrane adaptation, protein conformation, and energetics. The large conductance mechanosensitive channel from ... -
Transmembrane Signaling of Chemotaxis Receptor Tar: Insights from Molecular Dynamics Simulation Studies
(Elsevier, 2011-06-22)Transmembrane signaling of chemotaxis receptors has long been studied, but how the conformational change induced by ligand binding is transmitted across the bilayer membrane is still elusive at the molecular level. To ... -
Solid-State NMR Ensemble Dynamics as a Mediator between Experiment and Simulation
(Elsevier, 2011-06-22)Solid-state NMR (SSNMR) is a powerful technique to describe the orientations of membrane proteins and peptides in their native membrane bilayer environments. The deuterium (2H) quadrupolar splitting (DQS), one of the SSNMR ... -
Transmembrane Helix Orientation and Dynamics: Insights from Ensemble Dynamics with Solid-State NMR Observables
(Elsevier, 2011-06-22)As the major component of membrane proteins, transmembrane helices embedded in anisotropic bilayer environments adopt preferential orientations that are characteristic or related to their functional states. Recent developments ... -
Brownian Dynamics Simulations of Ion Transport through the VDAC
(Elsevier, 2011-02-02)It is important to gain a physical understanding of ion transport through the voltage-dependent anion channel (VDAC) because this channel provides primary permeation pathways for metabolites and electrolytes between the ... -
Molecular Dynamics Studies of Ion Permeation in VDAC
(Elsevier, 2011-02-02)The voltage-dependent anion channel (VDAC) in the outer membrane of mitochondria serves an essential role in the transport of metabolites and electrolytes between the cell matrix and mitochondria. To examine its structure, ...