Biomedical subjects

S W Chiu

Publications and source records attributed to S W Chiu.

44 records · Page 3Linked to original sources

PubMed1989

Water and polypeptide conformations in the gramicidin channel. A molecular dynamics study.

Theoretical studies of ion channels address several important questions. The mechanism of ion transport, the role of water structure, the fluctuations of the protein channel itself, and the influence of structural changes are accessible from these studies. In this paper, we have carried out a 70-ps molecular dynamics simulation on a model structure of gramicidin A with channel waters. The backbone of the protein has been analyzed with respect to the orientation of the carbonyl and the amide groups. The results are in conformity with the experimental NMR data. The structure of water and the hydrogen bonding network are also investigated. It is found that the water molecules inside the channel act as a collective chain; whereas the conformation in which all the waters are oriented with the dipoles pointing along the axis of the channel is a preferred one, others are also accessed during the dynamics simulation. A collective coordinate involving the channel waters and some of the hydrogen bonding peptide partners is required to describe the transition of waters from one configuration to the other.

Gramicidin↗

PubMed1989

Stochastic theory of singly occupied ion channels. II. Effects of access resistance and potential gradients extending into the bath.

In a previous paper (Jakobsson, E., and S. W. Chiu. 1987. Biophys. J. 52:33-46), we presented the stochastic theory of the singly occupied ion channel as applied to sodium permeation of gramicidin channels, with the assumption of perfect equilibration between the bathing solutions and the ends of the ion channel. In the present paper we couple the previous theory to electrodiffusion of ions from the bulk of the bathing solution to the channel mouth. Our electrodiffusion calculations incorporate estimates of the potential gradients near the channel mouth due to image forces and due to the fraction of the applied potential that falls beyond the ends of the channel. To keep the diffusion calculation one-dimensional, we make the assumption that the electrical potentials in the bath exhibit hemispherical symmetry. As in the previous paper, the flux equations are fit to data on sodium permeation of normal gramicidin A, and gramicidins modified by the fluorination of the valine at the No. 1 position (Barrett Russell, E. W., L. B. Weiss, F. I. Navetta, R. E. Koeppe II, and O. S. Anderson. 1986. Biophys. J. 49:673-686). The conclusions of our previous paper with respect to the effect of fluorination on the mobility, surface potential well depth, and central barrier, are confirmed. However the absolute values of these quantities are somewhat changed when diffusive resistance to the mouth is taken into account, as in the present paper. Future possibilities for more accurate calculations by other methods are outlined.

Electric Conductivity↗

PubMed1989

Unusual rib destruction in pleuropulmonary tuberculosis.

Two cases of pleuropulmonary tuberculosis had local rib destruction simulating malignancy. There was no superficial abscess formation which was the usual clinical feature of rib tuberculosis. Computerized tomography was valuable in demonstrating and assessing the extent of skeletal involvement.

Adult↗

PubMed1988

Ammonium ions and glutamine inhibit sporulation of Coprinus cinereus basidia assayed in vitro.

Basidia of Coprinus cinereus (Schaeff.:Fr) S. F. Gray are committed to their developmental pathway, continuing through meiosis and sporulation even when excised from their parental fruit body. A technique is described which permits this in vitro differentiation to be used as a rapid, small-scale bioassay for chemicals which interfere with these morphogenetic processes. Of a range of compounds tested, only ammonium and glutamine, and some structural analogues, were able to inhibit basidium differentiation. Growth was not inhibited; instead the differentiation inhibitors caused vegetative hyphal tips to grow out from regions of the basidial apparatus expected to be in active growth during sporulation. Depending on the stage reached at the time of exposure to the inhibitors, vegetative hyphal tips emerged from the four apical sites for sterigmata, from the tips of sterigmata, from partially formed or abnormal spores, and from the basal regions of the basidium from which paraphyses would be expected to arise. The experiments show that ammonium ions and glutamine halt meiocyte differentiation. Reports of similar effects in other organisms, animals and plants as well as fungi, may imply that sporulation events are generally sensitive to ammonium inhibition.

Agaricales↗

PubMed1988

Application of Brownian motion theory to the analysis of membrane channel ionic trajectories calculated by molecular dynamics.

This paper shows how Brownian motion theory can be used to analyze features of individual ion trajectories in channels as calculated by molecular dynamics, and that its use permits more precise determinations of diffusion coefficients than would otherwise be possible. We also show how a consideration of trajectories of single particles can distinguish between effects due to the magnitude of the diffusion coefficient and effects due to barriers and wells in the potential profile, effects which can not be distinguished by consideration of average fluxes.

Chemical Phenomena↗

PubMed1987

Stochastic theory of ion movement in channels with single-ion occupancy. Application to sodium permeation of gramicidin channels.

The electrodiffusion equations were solved for the one-ion channel both by the analytical method due to Levitt and also by Brownian dynamic simulations. For both types of calculations equilibration of ion distribution between the bath and the ends of the channel was assumed. Potential profiles were found that give good fits to published data on Na+ permeation of gramicidin channels. The data were best fit by profiles that have no relative energy maximum at the mouth of the channel. This finding suggests that alignment of waters or channel charged groups inside the channel in response to an ion's approach may provide an energetically favorable situation for entry sufficient to overcome the energy required for removing bulk waters of hydration. An alternative possibility is that the barrier to ion entry is situated outside the region restricted to single-ion occupancy. Replacement of valine with more polar amino acids at the No. 1 location was found to correspond to a deepening of the potential minima near the channel mouths, an increase in height of the central barrier to ion translocation across the channel, and possibly a reduction in the mobility of the ion-water complex in the channel. The Levitt theory was extended to calculate passage times for ions to cross the channel and the blocking effects of ions that entered the channel but didn't cross. These quantities were also calculated by the Brownian dynamics method.

Gramicidin↗

PubMedDate not supplied

Nutritional value of ganoderma extract and assessment of its genotoxicity and antigenotoxicity using comet assays of mouse lymphocytes.

The nutritive composition of a hot aqueous extract of wild Ganoderma fruit bodies was determined. This extract was assessed for cytotoxicity and in vivo genotoxicity by both acute and subchronic exposure of mice (given by mouth at a dose equivalent to extract of 220g fresh Ganoderma fruit body/kg body weight). To test any alleged protection against mutagens by Ganoderma treatments, the mice were injected intraperitoneally with the radiomimetic mutagen ethyl methanesulfonate (EMS), and after 24hr of treatment their lymphocytes were examined using the comet assay. Ganoderma extract consisted of Folin-positive material (68.9% of dry weight), but protein comprised only 7.3% of dry weight. Glucose accounted for 11. 1% and metals 10.2% of dry weight (K, Mg and Ca being the major components with Ge (often touted as being of value in sales literature for Ganoderma preparations) having the fifth highest metal concentration at 489 microg/g). In comparison to rodent chow, Ganoderma extract was a modest dietary supplement. No evidence was found for genotoxic chromosomal breakage nor cytotoxic effects by Ganoderma extract in the mouse, nor did it protect against the effects of ethyl methanesulfonate. We found no support in this study for the extract having any value in protecting against the test mutagen.

Administration, Oral↗

PubMedDate not supplied

A quantitative study of the interphasic nucleolar organizer regions in two human cervical carcinoma cell lines.

We have studied the relationship between interphase nucleolar organizer regions (NORs) distribution and nucleolar size in cancer cells under prolonged culture. Six morphometric parameters (NUCLEAR SIZE, NOR NUMB, AREA SUM, MEAN AREA, SIZE RATIO and SIZE RATIO MEAN) of AgNORs in cancer cells were analyzed by an image analyzing system. The results show that the parameters NORN NUMB, AREA SUM and NUCLEAR SIZE demonstrate the most consistent changes in the two cervical carcinoma cell lines studied. These three parameters of AgNORs appear to be correlated with the degree of "dedifferentiation" that occurred in tumor cells under prolonged culture.

Cell Division↗