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Brendan O'Malley

Publications and source records attributed to Brendan O'Malley.

6 recordsLinked to original sources
PubMed2006

Molecular basis for dimethylsulfoxide (DMSO) action on lipid membranes.

Dimethylsulfoxide (DMSO) is an aprotic solvent that has the ability to induce cell fusion and cell differentiation and enhance the permeability of lipid membranes. It is also an effective cryoprotectant. Insights into how this molecule modulates membrane structure and function would be invaluable toward regulating the above processes and for developing chemical means for enhancing or hindering the absorption of biologically active molecules, in particular into or via the skin. We show here by means of molecular simulations that DMSO can induce water pores in dipalmitoyl-phosphatidylcholine bilayers and propose this to be a possible pathway for the enhancement of penetration of actives through lipid membranes. DMSO also causes the membrane to become floppier, which would enhance permeability, facilitate membrane fusion, and enable the cell membrane to accommodate osmotic and mechanical stresses during cryopreservation.

Dimethyl Sulfoxide↗
PubMed2005

Structure of hard-sphere fluid and precursor structures to crystallization.

The structural origin of the commonly observed split second peak of the radial distribution function of a supercooled or glassy liquid is examined in this work using the hard-sphere fluid as an example. A novel approach to the analysis of the microscopic structure of a fluid is described, which permits the decomposition of both the radial distribution function and bond-angle distribution function of a system of particles into contributions from a small number of ring structures. The method uses a modified shortest-path definition of rings appropriate to the analysis of the medium-range structure of dense systems. It is shown that the split peak is an indicator of the emergence of precursor structures to crystal formation. The origin of the split peak provides a structural link between fluid and crystalline phases and our results suggest that it is neither a structural feature peculiar to glassy phases nor a smooth structural continuation of the stable-fluid phase. This structural feature of simple glassy systems is more appropriately described as a signifier of the frustration of emerging crystalline order in a fluid.

Journal Article↗
PubMed2005

Roles of carboxyl-terminal and farnesylated residues in the functions of the large hepatitis delta antigen.

The large hepatitis delta antigen (HDAg-L) mediates hepatitis delta virus (HDV) assembly and inhibits HDV RNA replication. Farnesylation of the cysteine residue within the HDAg-L carboxyl terminus is required for both functions. Here, HDAg-L proteins from different HDV genotypes and genotype chimeric proteins were analyzed for their ability to incorporate into virus-like particles (VLPs). Observed differences in efficiency of VLP incorporation could be attributed to genotype-specific differences within the HDAg-L carboxyl terminus. Using a novel assay to quantify the extent of HDAg-L farnesylation, we found that genotype 3 HDAg-L was inefficiently farnesylated when expressed in the absence of the small hepatitis delta antigen (HDAg-S). However, as the intracellular ratio of HDAg-S to HDAg-L was increased, so too was the extent of HDAg-L farnesylation for all three genotypes. Single point mutations within the carboxyl terminus of HDAg-L were screened, and three mutants that severely inhibited assembly without affecting farnesylation were identified. The observed assembly defects persisted under conditions where the mutants were known to have access to the site of VLP assembly. Therefore, the corresponding residues within the wild-type protein are likely required for direct interaction with viral envelope proteins. Finally, it was observed that when HDAg-S was artificially myristoylated, it could efficiently inhibit HDV RNA replication. Hence, a general association with membranes enables HDAg to inhibit replication. In contrast, although myristoylated HDAg-S was incorporated into VLPs far more efficiently than HDAg-S or nonfarnesylated HDAg-L, it was incorporated far less efficiently than wild-type HDAg-L; thus, farnesylation was required for efficient assembly.

Amino Acid Sequence↗
PubMed2003

Crystal nucleation in the hard sphere system.

The structure and growth of crystal nuclei that spontaneously form during computer simulations of the simplest nontrivial model of a liquid, the hard sphere system, is described in this work. Compact crystal nuclei are observed to form at densities within the coexistence region of the phase diagram. The nuclei possess a range of morphologies with a predominance of multiply twinned particles possessing in some cases a significant decahedral character. However the multiply twinned particles do not form from an initial decahedral core but appear to nucleate as blocks of a face-centered cubic crystal partially bounded by stacking faults.

Journal Article↗
PubMed2002

A hepatitis B surface antigen mutant that lacks the antigenic loop region can self-assemble and interact with the large hepatitis delta antigen.

A novel hepatitis B virus surface antigen mutant harboring a deletion of most of the major antigenic loop region was competent for self-assembly and secretion. Although the mutant protein was competent for interaction with and incorporation of free large hepatitis delta antigen, it was partially defective in hepatitis delta virus RNP incorporation.

Amino Acid Sequence↗