DSpace at Bose Institute: Recent submissions
Now showing items 1081-1100 of 2749
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Role of C-terminal residues in oligomerization and stability of λ CII: Implications for lysis-lysogeny decision of the phage
(ACADEMIC PRESS LTD ELSEVIER SCIENCE LTD, 2005-01-14)A crucial element in the lysis-lysogeny decision of the temperate coliphage lambda is the phage protein CII, which has several interesting properties. It promotes lysogeny through activation of three phage promoters p(E), ... -
Motifs in gene transcription regulatory networks
(ELSEVIER SCIENCE BV, 2005-02-01)A brief overview is given of the structure and evolution of gene transcription regulatory networks (GTRNs) of simple organisms like Escherichia coli and yeast Saccharomyces cerevisiae. A prominent motif appearing in the ... -
Improved Model of a LexA Repressor Dimer Bound to recA Operator
(ADENINE PRESS, 2004-04)complete three dimensional model for the LexA repressor dimer bound to the recA operator site consistent with relevant biochemical and biophysical data for the repressor was proposed from our laboratory when no crystal ... -
Graded and binary responses in stochastic gene expression
(IOP Publishing Ltd., 2004-12-01)Recently, several theoretical and experimental studies have been undertaken to probe the effect of stochasticity on gene expression (GE). In experiments, the GE response to an inducing signal in a cell, measured by the ... -
Structural insight into the interactions of SoxV, SoxW and SoxS in the process of transport of reductants during sulfur oxidation by the novel global sulfur oxidation reaction cycle
(ELSEVIER SCIENCE, 2006-01-01)Microbial redox reactions involving inorganic sulfur compounds, mainly the sulfur anions, are one of the vital reactions responsible for the environmental sulfur balance. These reactions are mediated by phylogenetically ... -
pH-dependent autocleavage of lambda repressor occurs in the operator-bound form: characterization of lambda repressor autocleavage
(PORTLAND PRESS, 2004-04-15)The first-order rate constants for the RecA-independent, spontaneous, pH-dependent autocleavage of the lambda cl repressor was measured in the present study at pH 10.6 at 27, 37 and 42 degreesC respectively. Autocleavage ... -
A structural study towards the understanding of the interactions of SoxY, SoxZ, and SoxB, leading to the oxidation of sulfur anions via the novel global sulfur oxidizing (sox) operon
(ACADEMIC PRESS, 2005-09-23)Microbial redox reactions of inorganic sulfur compounds, mainly the sulfur anions, are one of the vital reactions responsible for the environmental sulfur balance. These reactions are mediated by phylogenetically diverse ... -
Entamoeba histolytica DNA methyltransferase (Ehmeth) is a nuclear matrix protein that binds EhMRS2, a DNA that includes a scaffold/matrix attachment region (S/MAR)
(ELSEVIER SCIENCE BV, 2005-01)The protozoan parasite Entamoeba histolytica express a cytosine-5 DNA methyltransferase (Ehmeth) that belongs to the DNMT2 protein family. The biological function of members of this DNMT2 family is unknown. In the present ... -
Role of mutational bias and natural selection on genome-wide nucleotide bias in prokaryotic organisms
(ELSEVIER SCI, 2005-07)Correlations between genomic GC contents and amino acid frequencies were studied in the homologous sequences of 12 eubacterial genomes. Results show that amino acids encoded by GC-rich codons increases significantly with ... -
On the origin of genomic adaptation at high temperature for prokaryotic organisms
(ELSEVIER SCIENCE, 2005-05-13)For a long time, the central issue of evolutionary genomics was to find out the adaptive strategy of nucleic acid molecules of various microorganisms having different optimal growth temperatures (T-opt). Long-standing ... -
Inhibition of gene expression with double strand RNA interference in Entamoeba histolytica
(ACADEMIC PRESS INC ELSEVIER SCIENCE, 2004-08-06)In order to inhibit gene expression in Entamoeba histolytica, we have developed a method based on expressing double strand RNA interference constructs in stable transformants. The 5' end of Eh Dia was cloned head to head ... -
Towards a resolution on the inherent methodological weakness of the "effective number of codons used by a gene"
(ELSEVIER SCIENCE, 2005-05-20)Recently Anders Fuglsang provided a modified way for calculating N-c when biased discrepancy is present in a gene [Biochem. Biophys. Res. Commun. 317 (2004) 957]. Instead of taking the average codon homozygosity for each ... -
The Iml3 protein of the budding yeast is required for the prevention of precocious sister chromatid separation in meiosis I and for sister chromatid disjunction in meiosis II
(SPRINGER, 2004-08)The mitotic kinetochore of the budding yeast contains a number of proteins which are required for chromosome transmission but are non-essential for vegetative growth. We show that one such protein, Iml3, is essential for ... -
3(10)-Helix Adjoining a -Helix and b -Strand: Sequence and Structural Features and Their Conservation
(WILEY-BLACKWELL, 2005-06-15)Does the amino acid use at the terminal positions of an a-helix become altered depending on the context-more specifically. when there is an adjoining 3(10)-helix, and can a single helical cylinder encompass the resultant ... -
Sequence divergence of Entamoeba histolytica tubulin is responsible for its altered tertiary structure
(ACADEMIC PRESS INC ELSEVIER SCIENCE, 2004-07-02)Atypical microtubular structures of the protozoan parasite Entamoeba histolytica (Eh) have been attributed to amino acid sequence divergence of Eh tubulin. To investigate if this sequence divergence leads to significant ... -
Conservation and relative importance of residues across protein-protein interfaces
(NATL ACAD SCIENCES, 2005-10-25)A core region surrounded by a rim characterizes biological interfaces. We ascertain the importance of the core by showing the sequence entropies of the residues comprising the core to be smaller than those in the rim. Such ... -
Compositional correlations in canine genome reflects similarity with human genes
(SPRINGER, 2006-05-31)The base compositional correlations that hold among various coding and noncoding regions of the canine genome have been analysed. The distribution pattern of genes, on the basis of GC 3 composition, shows a wide range ... -
A Dissection of Specific and Non-specific Protein-Protein Interfaces
(ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD, 2004-02-27)We compare the geometric and physical-chemical properties of interfaces involved in specific and non-specific protein-protein interactions in crystal structures reported in the Protein Data Bank. Specific interactions are ... -
Molecular modeling and characterization of Vibrio cholerae transcription regulator HlyU
(BIOMED CENTRAL, 2006-11-20)Background: The SmtB/ArsR family of prokaryotic metal-regulatory transcriptional repressors represses the expression of operons linked to stress-inducing concentrations of heavy metal ions, while derepression results from ... -
Disulfide bonds, their stereospecific environment and conservation in protein structures
(OXFORD UNIV PRESS, 2004-11)We studied the specificity of the non-bonded interaction in the environment of 572 disulfide bonds in 247 polypeptide chains selected from the Protein Data Bank. The preferred geometry of interaction of peptide oxygen atoms ...