Download or read book Identification of Targets in E Coli RNA Polymerase for the Transcription Antiterminator Q Protein written by Haitao Sun and published by . This book was released on 2000 with total page 308 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Identification of Targets in Escherichia Coli RNA Polymerase for the Transcription Antiterminator Q Protein written by Haitao Sun and published by . This book was released on 2000 with total page 150 pages. Available in PDF, EPUB and Kindle. Book excerpt: Since sigma70 falls off the RNAP complex early during elongation, Q almost certainly has to interact also with the core RNAP. Using the yeast two-hybrid system and affinity chromatography, I have found evidence that Q interacts specifically with both the beta and beta ' subunits, and that the regions mediating the interactions are residues 643--844 of the 1342-residue beta, and the C-terminal region 1130--1407 of beta', respectively. I have also found an interaction between phage 82 Q and the alpha subunit in an affinity chromatography experiment.
Download or read book Regions Of E Coli RNA Polymerase Required For Lambda Q Mediated Antitermination In Binding And Function written by Heeyoun Bunch and published by . This book was released on 2009 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Controlled gene expression in phage [lamda] is a model of transcription regulation which is mainly mediated by transcription factors to activate or repress E. coli RNA polymerase (RNAP). They switch appropriate genes on or off, determining the lysogenic or lytic pathway of progeny phages. Q is a [lamda] late gene regulator that exerts antitermination for products of the pR' promoter. Previous studies presented exciting aspects of [lamda]Q modification of RNAP which cause dramatic changes in the protein under certain conditions. RNAP engaged with [lamda]Q escapes a [sigma]-mediated promoter proximal pause and overcomes an intrinsic terminator downstream of the pR' promoter. In addition, [lamda]Q alters RNAP dynamics, aiding faster elongation, fewer pauses, and resistance to both the intrinsic and [rho]-dependent termination. Although [lamda]Q-mediated antitermination was characterized with previous works as described above, the mechanism by which [lamda]Q exerts antitermination is still unclear. In order to uncover this mechanism, this study attempted to answer the fundamental question of where [lamda]Q interacts with RNAP. First, the two largest subunits of RNAP were systematically dissected to map a [lamda]Q binding region on RNAP. The results suggested a clustered region of three fragments of [beta] and [beta]' for [lamda]Q binding, and as small as 82 amino acids ([beta]600-681) within this region were identified to bind to [lamda]Q. Second, a potential [lamda]Q binding region of RNAP proposed by a previous study was evaluated in this study. Although the region is located in the surface domain of [beta]600- 681, mutational analyses targeting the region demonstrated little [lamda]Q binding. Third, twelve RNAP mutants that reduce [lamda]Q-mediated antitermination were identified, and they suggested four spatial regions of RNAP as critical for [lamda]Q antitermination. Finally, one of the RNAP mutants, [beta]K1073G, presented altered function of NusA, a transcription elongation factor, in [lamda]Q-mediated antitermination at the intrinsic terminator, providing evidence of cooperation between NusA and [lamda]Q antitermination.
Download or read book Mutational Analysis of Transcription Antitermination Mediated by Lambdoid Phage Gene Q Products written by Hwai-Chen Guo and published by . This book was released on 1990 with total page 654 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Roles for the Nontranscribed DNA Strand and Sigma 70 Initiation Factor in E Coli RNA Polymerase Pausing written by Brian Z. Ring and published by . This book was released on 1995 with total page 292 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Identification of Two Regions of the sigma 70 Subunit of Escherichia Coli RNA Polymerase that are Involved in Promoter Recognition written by Deborah Anne Siegele and published by . This book was released on 1989 with total page 458 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book A Study of the Transcriptional Control Region written by Rabindra Nath Roy and published by . This book was released on 1982 with total page 660 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Transcription Antitermination Mediated by the Phage Lambda Q Protein written by Mark Steven Kainz and published by . This book was released on 1994 with total page 356 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Regulation of Gene Expression in Escherichia coli written by E. C. C. Lin and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 1010 pages. Available in PDF, EPUB and Kindle. Book excerpt: This up-to-date guide focuses on the understanding of key regulatory mechanisms governing gene expression in Escherichia coli. Studies of E. coli not only provide the first models of gene regulation, but research continues to yield different control mechanisms.
Download or read book Transcription Termination and Antitermination written by Thomas James Santangelo and published by . This book was released on 2003 with total page 408 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Emerging Targets in Antibacterial and Antifungal Chemotherapy written by Joyce Sutcliffe and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 619 pages. Available in PDF, EPUB and Kindle. Book excerpt: Emerging Targets in Antibacterial and Antifungal Chemotherapy offers constructive ideas to researchers that could lead to the discovery of entirely new classes of drugs. The authors emphasize new topics rather than review work on known antibacterials and antifungals, and identify new targets--either the rate-limiting component of a biochemical pathway or a component of the pathway that is susceptible to a ``screening'' or ``rational drug design'' approach. Each chapter reviews the biochemical pathway and its place in the cellular scheme in order to place the target in perspective. The authors, a mixture of academic researchers and drug-discovery investigators in pharmaceutical companies, also extend these theoretical concerns into practical applications and suggest useful screening methodologies. The importance of this subject area is demonstrated by the increasing number of papers in the literature that point to potential targets and screening methodologies for new antibacterials. This book also deals with antifungals, investigating the inherent limitations in existing antifungals (many of which are extremely toxic or have only limited efficacy), and pointing to major developments in the discovery of novel antifungals. Emerging Targets in Antibacterial and Antifungal Chemotherapy will be of interest to professional microbiologists, biochemists, and cell biologists in both academic and industrial laboratories.
Download or read book Local and Genome scale Study of the Interplay Between Escherichia Coli RNA Polymerase and Nucleoid associated Proteins written by Erik Dean Jessen and published by . This book was released on 2018 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bacterial transcription, once thought to be organized into discrete, largely non-overlapping units, has been revealed by deep cDNA sequencing to generate ubiquitous, overlapping, sense and antisense RNAs, many of which are noncoding. The function of the extensive antisense transcription of bacterial genes is controversial, and unclear in lieu of mechanistic dissection. We report here characterization of a model antisense transcription unit (bglAS) in the cryptic, H-NS-silenced b-glucoside utilization operon of E. coli K-12 (bglGFBH). bglAS was discovered because inhibition of Rho greatly increased its level and length. We created bglAS- alleles with little or no effect on bglF encoded in the sense strand by disabling the bglAS promoter with base substitutions. Although bglAS exists in a small H-NS-free island in the otherwise H-NS-coated bgl operon, the H-NS distribution is unchanged in bglAS- strains. However, when bglGFBH sense transcription was activated, bglAS decreased b-glucoside-induction of bgl gene expression via BglG-mediated antitermination of the bgl operon attenuators. Using a time series of ChIP-chip, we found that RNA polymerase progression through bglGFBH is hindered by bglAS transcription. In contrast, overexpression of bglAS RNA in trans had no effect on bgl operon induction, supporting bglAS function by transcriptional interference with bglGFBH expression. The bglAS promoter was upregulated by nitrite, consistent with bioinformatic detection of adjacent NarL/P binding sites and suggesting potential bglAS function as an environmental modulator. The proximity of bglAS to the surrounding H-NS filaments led us to investigate the interactions between transcription and H-NS. Consistent with the inability of transcription to affect H-NS binding patterns at the bgl operon, the genome-scale H-NS distribution exhibited minimal change when all transcription was inhibited with rifampicin. However, deletion of H-NS and StpA, an H-NS paralog, resulted in increased progression of RNAP along active, H-NS bound transcription units. Analyzing NET-seq data suggested that H-NS inhibits RNAP progression by promoting pausing of RNAP at non-canonical pause sequences. In contrast to H-NS, the nucleoid-associated protein HU was found to have a distribution pattern mirroring highly active transcription units. Upon further investigation, HU most closely correlated with the presence of R-loops, stable RNA:DNA hybrids external of RNAP. R-loop levels are independent of the presence of HU, suggesting HU is not involved in the resolution of R-loops. Instead, deletion of HU confers sensitivity to reactive oxygen species, and we propose a model by where HU binds to the areas around R-loops to protect DNA from mutagenesis. The combined studies presented here are a significant advancement in our understanding of the function of antisense transcripts and the interaction between transcription and nucleoid-associated proteins.
Download or read book Bacteriophage T4 written by Christopher K. Mathews and published by . This book was released on 1983 with total page 432 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Biomolecular Feedback Systems written by Domitilla Del Vecchio and published by Princeton University Press. This book was released on 2014-10-26 with total page 287 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides an accessible introduction to the principles and tools for modeling, analyzing, and synthesizing biomolecular systems. It begins with modeling tools such as reaction-rate equations, reduced-order models, stochastic models, and specific models of important core processes. It then describes in detail the control and dynamical systems tools used to analyze these models. These include tools for analyzing stability of equilibria, limit cycles, robustness, and parameter uncertainty. Modeling and analysis techniques are then applied to design examples from both natural systems and synthetic biomolecular circuits. In addition, this comprehensive book addresses the problem of modular composition of synthetic circuits, the tools for analyzing the extent of modularity, and the design techniques for ensuring modular behavior. It also looks at design trade-offs, focusing on perturbations due to noise and competition for shared cellular resources. Featuring numerous exercises and illustrations throughout, Biomolecular Feedback Systems is the ideal textbook for advanced undergraduates and graduate students. For researchers, it can also serve as a self-contained reference on the feedback control techniques that can be applied to biomolecular systems. Provides a user-friendly introduction to essential concepts, tools, and applications Covers the most commonly used modeling methods Addresses the modular design problem for biomolecular systems Uses design examples from both natural systems and synthetic circuits Solutions manual (available only to professors at press.princeton.edu) An online illustration package is available to professors at press.princeton.edu
Download or read book RNA Chaperones written by Tilman Heise and published by . This book was released on 2020 with total page 314 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides a wide spectrum of methods to study RNA chaperones in vitro, at the single molecule level, and protocols useful for cell-based assays. Beginning with a section on a number of bacterial proteins for study, the volume also explores proteins from eukaryotic cells and how to delve into the complex interactions between RNA chaperones and the folding and unfolding of proteins. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, RNA Chaperones: Methods and Protocols serves as an ideal guide for scientists and students interested in RNA biology and RNA chaperones. Chapter 3 is available Open Access under a CC-BY 4.0 license via link.springer.com.
Download or read book Chemical Abstracts written by and published by . This book was released on 2002 with total page 2626 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Prokaryotic Metabolism and Physiology written by Byung Hong Kim and published by Cambridge University Press. This book was released on 2019-05-16 with total page 509 pages. Available in PDF, EPUB and Kindle. Book excerpt: Extensive and up-to-date review of key metabolic processes in bacteria and archaea and how metabolism is regulated under various conditions.
