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Res Microbiol. 2002 Oct;153(8):519-26.
Domain analysis of transcriptional regulators bearing PTS regulatory domains.

Greenberg DB, Stulke J, Saier MH Jr.

Division of Biology, University of California at San Diego, La Jolla 92093-0116, USA.

Multidomain transcriptional activators and antiterminators that include PTS regulatory domains (PRDs) were subjected to sequence analyses. All of these transcriptional regulators exhibit one or more N-terminal nucleic acid binding site(s) and two PRD regions. Additionally, we show that the activators contain C-terminal PTS IIB and IIA domains with fully conserved phosphorylation sites (cysteine and histidine, respectively). One activator, LevR has a different domain order than all other activators with a truncated IIA domain preceding (rather than following) the IIB domain, and it has a C-terminal PRD, rather than two adjacent PRDs. Our analyses suggest that the activators and antiterminators arose early, and that domain shuffling either within or between proteins has occurred rarely. The results allow us to propose an evolutionary pathway for the appearance of these transcription factors and to suggest functional significance for these domains and specific residues within them.

online pharmacy ref. source: www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12437213&dopt=Abstract

J Biomed Mater Res. 2000 Dec 15;52(4):662-8.
A mechanistic study of the antibacterial effect of silver ions on Escherichia coli and Staphylococcus aureus.

Feng QL, Wu J, Chen GQ, Cui FZ, Kim TN, Kim JO.

Department of Materials Science and Engineering, Tsinghua University, Beijing 100084, China.

To investigate the mechanism of inhibition of silver ions on microorganisms, two strains of bacteria, namely Gram-negative Escherichia coli (E. coli) and Gram-positive Staphylococcus aureus (S. aureus), were treated with AgNO(3) and studied using combined electron microscopy and X-ray microanalysis. Similar morphological changes occurred in both E. coli and S. aureus cells after Ag(+) treatment. The cytoplasm membrane detached from the cell wall. A remarkable electron-light region appeared in the center of the cells, which contained condensed deoxyribonucleic acid (DNA) molecules. There are many small electron-dense granules either surrounding the cell wall or depositing inside the cells. The existence of elements of silver and sulfur in the electron-dense granules and cytoplasm detected by X-ray microanalysis suggested the antibacterial mechanism of silver: DNA lost its replication ability and the protein became inactivated after Ag(+) treatment. The slighter morphological changes of S. aureus compared with E. coli recommended a defense system of S. aureus against the inhibitory effects of Ag(+) ions. 2000 John Wiley & Sons, Inc.

online pharmacy ref. source: www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11033548&dopt=Abstract

J Gerontol A Biol Sci Med Sci. 2000 Oct;55(10):B489-95.
Stimulation of prostaglandin E2 and interleukin-1beta production from old rat periodontal ligament cells subjected to mechanical stress.

Shimizu N, Yamaguchi M, Uesu K, Goseki T, Abiko Y.

Department of Orthodontics, Nihon University School of Dentistry at Matsudo, Japan. shimizu-ent.nihon-u.ac.jp

Although the severity of periodontal disease is known to be affected by the age of the host, the pathological role of aging in periodontal disease, especially that attributable to trauma from occlusion, has not been well characterized. Prostaglandin (PG)E2 and interleukin (IL)-1beta are key mediators involved in periodontal diseases, potent stimulators of bone resorption, and are produced by human periodontal ligament (PDL) cells in response to mechanical stress. To investigate age-related changes in the biosynthetic capacity of PGE2 and IL-1beta in PDL cells, we examined the effects of in vivo aging with mechanical tension on PGE2 and IL-1beta expression by rat PDL cells. PDL cells obtained from the incisors of 6-week (young) and 60-week (old) rats were cultured on flexible-bottomed culture plates. The cells were deformed by causing a 9% or 18% increase in surface area at 6 cycles per minute for 1 to 5 days. We found an approximately twofold increase in PGE2 and IL-1beta production by old PDL cells subjected to mechanical tension compared with that by young cells, although the constitutive levels were similar in both. The expression of cyclooxygenase (COX)-2 and IL-1beta mRNA (messenger ribonucleic acid) was enhanced by mechanical tension as determined by use of reverse transcription-polymerase chain reaction (RT-PCR), whereas COX-1 and IL-1beta-converting enzyme mRNA remained unchanged. It is possible that the large amount of PGE2 and IL-1beta produced by PDL cells from an aged host in response to mechanical force may be positively related to the acceleration of alveolar bone resorption.

online pharmacy ref. source: www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11034222&dopt=Abstract

FEBS Lett. 2000 Sep 1;480(2-3):255-60.
A chloroplastic RNA-binding protein is a new member of the PPR family.

Lahmy S, Barneche F, Derancourt J, Filipowicz W, Delseny M, Echeverria M.

Laboratoire Genome et Developpement des Plantes', Universite de Perpignan UMR CNRS 5096, France.

P67, a new protein binding to a specific RNA probe, was purified from radish seedlings [Echeverria, M. and Lahmy, S. (1995) Nucleic Acids Res. 23, 4963-4970]. Amino acid sequence information obtained from P67 microsequencing allowed the isolation of genes encoding P67 in radish and Airabidopsis thaliana. Immunolocalisation experiments in transfected protoplasts demonstrated that this protein is addressed to the chloroplast. The RNA-binding activity of recombinant P67 was found to be similar to that of the native protein. A significant similarity with the maize protein CRP1 [Fisk, D.G., Walker, M.B. and Barkan, A. (1999) EMBO J. 18, 2621-2630] suggests that P67 belongs to the PPR family and could be involved in chloroplast RNA processing.

online pharmacy ref. source: www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11034340&dopt=Abstract

J Theor Biol. 2000 Nov 21;207(2):177-94.
A statistical mechanical model for predicting B-DNA curvature and flexibility.

Tsai L, Luo L.

Department of Physics, Inner Mongolia University, Hohhot, 010021, China.

A statistical mechanical model taking into account the symmetric twisting, tilting, sliding fluctuations and asymmetric rolling fluctuations has been proposed to predict the macroscopic curvature and flexibility of B-DNA. Based on the statistical data of structural parameters of double helix in nucleic acid database and the related theoretical analysis, the equilibrium angular parameters (Omega, rho and tau) describing the orientation of successive base-pair planes, the translation parameters (D(y)) along the long axis of neighboring base-pair step and the corresponding force constants are arranged for ten dimers appropriately. Under the assumption of independent angular parameters, independent base-pair steps and a simple energy function, we can calculate the macroscopic curvature and the flexibility of DNA sequences through the transformation matrix <R> and the Boltzmann ensemble average. The predictions on curvature and flexibility of DNA have been compared with the corresponding experimental data. The agreement is remarkably good. It is demonstrated that the lowering of the temperature does increase the DNA curvature. 2000 Academic Press.

online pharmacy ref. source: www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11034828&dopt=Abstract

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