The bacterial domain
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This book is divided into five parts: Part I introduces molecular genetic methods to study bacterial nucleoids; Part II highlights the study of bacterial nucleoid with whole genome analysis method; Part III discusses molecular biology methods to study nucleoid structuring factors; Part IV looks at imaging bacterial nucleoid; and Part V explores biophysics of the bacterial nucleoid.
369p vimeyers 29-05-2024 1 1 Download
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Reconstructing phylogenetic trees from protein sequences normally requires empirical amino acid substitution models to calculate the likelihood of trees or genetic distances between species. The tree of life is classified into three domains of Eukaryotes, Archaea, and Bacteria. The amino acid substitution models have been intensively studied for decades, but few are related to Bacteria. Rooting bacterial trees remains a challenging problem in the phylogenetic analysis due to the long branch separating Bacteria and other domains.
14p dianmotminh02 03-05-2024 4 2 Download
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The objective of this study was to analyze the features of FtsZ proteins in the Bacillus and Lactococcus genus groups. By exploring the available genomes, we identified and characterized FtsZ proteins in 19 Bacillus and 22 Lactococcus species.
12p vigojek 02-02-2024 4 0 Download
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In order to assess genetic diversity of a set of 41 Caricaceae accessions, this study used 34 primer pairs designed from the conserved domains of bacterial leaf blight resistance genes from rice, in a PCR based approach, to identify and analyse resistance gene analogues from various accessions of Carica papaya, Vasconcellea goudotiana, V. microcarpa, V. parviflora, V. pubescens, V. stipulata and, V. quercifolia and Jacaratia spinosa.
14p vinarcissa 21-03-2023 7 1 Download
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Fibrillar adhesins are long multidomain proteins that form filamentous structures at the cell surface of bacteria. They are an important yet understudied class of proteins composed of adhesive and stalk domains that mediate interactions of bacteria with their environment.
14p vijeeni2711 24-07-2021 15 0 Download
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N-terminal domains of BVU_4064 and BF1687 proteins from Bacteroides vulgatus and Bacteroides fragilis respectively are members of the Pfam family PF12985 (DUF3869). Proteins containing a domain from this family can be found in most Bacteroides species and, in large numbers, in all human gut microbiome samples.
9p vikentucky2711 26-11-2020 10 2 Download
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In this paper we describe a novel method to achieve high yield bacterial expression of a small protein domain with considerable therapeutic potential; Domain I of Beta-2-glycoprotein I (β2GPI). β2GPI is intrinsic to the pathological progression of the Antiphospholipid Syndrome (APS).
11p viuchiha2711 21-04-2020 12 0 Download
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The bacterial nicotine-degrading enzyme NicA2 isolated from P. putida was studied to assess its potential use in the treatment of tobacco dependence.
14p vihamax2711 21-04-2020 10 1 Download
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Lactobacillus sakei, a lactic acid bacterium naturally found in fresh meat and sea products, is considered to be one of the most important bacterial species involved in meat fermentation and bio-preservation. Several enzymes of Lb. sakei species contributing to microbial safeguarding and organoleptic properties of fermented-meat were studied. However, the specific autolytic mechanisms and associated enzymes involved in Lb. sakei are not well understood. The autolytic phenotype of 22 Lb.
9p kequaidan1 16-11-2019 16 1 Download
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not be aptly summarized in a single review. Here, we focus on one aspect of diversity (phylogenetic diversity) in one microbial domain (the Bacteria). We restrict our analysis to the highest taxonomic rank (phylum) and attempt to investigate the extent of global phylum level diversity within the Bacteria. Microbial ecology is the study of microbes in the natural environment and their interactions with each other. Investigating the nature of microorganisms residing within a specific habitat is an extremely important component of microbial ecology.
14p trinhthamhodang1 16-11-2019 20 1 Download
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Colicin N is a bacterial toxin that kills Escherichia coli and related cells. Its mode of action is of interest in protein import and toxicology. Colicin N translocates across the E. coli outer membrane and periplasm by interacting with several receptors.
5p vikimsa 22-02-2019 20 1 Download
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Ligand binding by the aryl hydrocarbon receptor (AhR), a member of the bHLH-PAS family of transcriptional reg-ulatory proteins, has been mapped to a region within the second ÔPASÕ domain, a conserved sequence motif ®rst discovered in the Per-ARNT-Sim family of proteins.
6p research12 29-04-2013 40 2 Download
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Hemolin, a plasma protein from lepidopteran insects, is composed of four immunoglobulin domains. Its synthesis is induced by microbial challenge. We investigated the biological functions of hemolin inManduca sexta.It was found to bind to the surface of bacteria and yeast, and caused these micro-organisms to aggregate. Hemolin was demonstrated to bind to lipopolysaccharide (LPS) from Gram-negativebacteriaand to lipoteichoic acid fromGram-positive bacteria.
8p research12 23-04-2013 33 1 Download
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Era is a highly conserved GTPase essential for bacterial growth. The N-terminal part of Era contains a conserved GTPase domain, whereas the C-terminal part of the protein contains anRNA- andmembrane-binding domain, theKH domain. To investigate whether the binding of Era to 16S rRNA and membrane requires its GTPase activity and whether the GTPase domain is essential for these acti-vities, the N- and C-terminal parts of the Streptococ-cus pneumoniaeEra –Era-N(aminoacids 1–185) andEra-C (amino acids 141–299), respectively – were expressed and purified. ...
9p tumor12 20-04-2013 30 2 Download
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Recombinant, bacterially expressed apoptin protein induces apoptosis inhuman tumour cell lines but not innormal cells, mimicking the behaviour of ectopically expressed apoptin. Recombinant apoptin is isolated exclusively as a highly stablemultimeric complex of 30–40monomers, with little, if any,a-helical and b-sheet structure. Despite its apparent disorder, multimeric apoptin is biologically active. Here, we present evidence thatmost of the apoptinmoietieswithin the complex may well share a similar conformation.
9p tumor12 20-04-2013 27 2 Download
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Sequence analysis of aPaenibacillussp. BP-23 recombinant clone coding for a previously described endoglucanase revealed the presence of an additional truncated ORF with homology to family 48 glycosyl hydrolases. The corres-ponding 3509-bp DNA fragment was isolated after gene walking and cloned inEscherichia coliXl1-Blue for expres-sion and purification. The encoded enzyme, a cellulase of 1091 amino acids with a deduced molecular mass of 118 kDa and a pI of 4.
7p fptmusic 16-04-2013 49 3 Download
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This chapter presents the relational model and three relational languages. The rela- tional model (Section 3.1) is used extensively throughout the text as is the relational algebra (Section 3.2). The chapter also covers the tuple relational calculus (Section 3.6) and domain relational calculus (Section 3.7) (which is the basis of the QBE language described in Chapter 5). Classes that emphasize only SQL may omit the relational calculus languages. Our notation for the tuple relational calculus makes it easy to present the con- cept of a safe query.
527p nhacsihuytuan 13-04-2013 46 4 Download
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A relationship in relational parlance is a table with columns and rows.* A row in the database represents an instance of the relation. Conceptually, you can picture a table as a spreadsheet. Rows in the spreadsheet are analogous to rows in a table, and the spreadsheet columns are analogous to table attributes. The job of the relational data architect is to fit the data for a specific problem domain into this relational model.
47p nhacsihuytuan 13-04-2013 35 3 Download
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Tetracycline repressor (TetR), which constitutes the most commonmechanismof bacterial resistance to an antibiotic, is a homodimeric protein composed of two identical sub-units, each of which contains a domain possessing a helix– turn–helix motif and a domain responsible for binding tetra-cycline. Binding of tetracycline in the protein pocket is accompanied by conformational changes in TetR, which abolish the specific interaction between the protein and DNA.
10p fptmusic 12-04-2013 40 1 Download
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Class III adenylyl cyclases usually possess six highly conserved catalytic residues. Deviations in these canonical amino acids are observed in several putative adenylyl cyclase genes as apparent in several bacterial genomes. This suggests that a variety of catalytic mechanisms may actually exist. The geneRv0386from Mycobacterium tuberculosiscodes for an adenylyl cyclase catalytic domain fused to an AAA-ATPase and a helix-turn-helix DNA-binding domain.
8p fptmusic 11-04-2013 22 1 Download