Download or read book Zinc Finger Proteins written by Shiro Iuchi and published by Springer Science & Business Media. This book was released on 2007-03-06 with total page 291 pages. Available in PDF, EPUB and Kindle. Book excerpt: In the early 1980s, a few scientists started working on a Xenopus transcription factor, TFIIIA. They soon discovered a novel domain associated with zinc, and named this domain "zinc finger. " Th e number of proteins with similar zinc fingers grew quickly and these proteins are now called C2H2, Cys2His2 or classical zinc finger proteins. To date, about 24,000 C2H2 zinc finger proteins have been recognized. Approximately 700 human genes, or more than 2% of the genome, have been estimated to encode C2H2 finger proteins. From the beginning these proteins were thought to be numerous, but no one could have predicted such a huge number. Perhaps thousands of scientists are now working on C2H2 zinc finger proteins fi-om variou s viewpoints. This field is a good example of how a new science begins with the insight of a few scientists and how it develops by efforts of numerous independent scientists, in contrast to a policy-driven scientific project, such as the Human Genome Project, with goals clearly set at its inception and with work performed by a huge collaboration throughout the world. As more zinc finger proteins were discovered, several subfamilies, such as C2C2, CCHC, CCCH, LIM, RING, TAZ, and FYVE emerged, increasing our understanding of zinc fingers. The knowledge was overwhelming. Moreover, scientists began defining the term "zinc finger" differently and using various names for identical zinc fingers. These complications may explain why no single comprehensive resource of zinc finger proteins was available before this publication.
Download or read book The Interaction of Zinc finger Proteins with DNA written by Louise Fairall and published by . This book was released on 1992 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Zinc finger Proteins in Oncogenesis written by Mels Sluyser and published by . This book was released on 1993 with total page 280 pages. Available in PDF, EPUB and Kindle. Book excerpt: Devoted to the role zinc-finger proteins play in the regulation of transcription and oncogenesis, this book includes material on functional domains of DNA-binding zinc-finger proteins, structure and function of zinc fingers, zinc-finger protein mutants, transcription activation mechanisms, and control and loss of gene transcription.
Download or read book Computational Approaches to Understand Interactions Between Zinc Finger Proteins and DNA written by Fengli Fu and published by . This book was released on 2010 with total page 298 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Molecular Biology of The Cell written by Bruce Alberts and published by . This book was released on 2002 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Handbook of Epigenetics written by Trygve O Tollefsbol and published by Academic Press. This book was released on 2017-07-10 with total page 684 pages. Available in PDF, EPUB and Kindle. Book excerpt: Handbook of Epigenetics: The New Molecular and Medical Genetics, Second Edition, provides a comprehensive analysis of epigenetics, from basic biology, to clinical application. Epigenetics is considered by many to be the new genetics in that many biological phenomena are controlled, not through gene mutations, but rather through reversible and heritable epigenetic processes. These epigenetic processes range from DNA methylation to prions. The biological processes impacted by epigenetics are vast and encompass effects in lower organisms and humans that include tissue and organ regeneration, X-chromosome inactivation, stem cell differentiation, genomic imprinting, and aging. The first edition of this important work received excellent reviews; the second edition continues its comprehensive coverage adding more current research and new topics based on customer and reader reviews, including new discoveries, approved therapeutics, and clinical trials. From molecular mechanisms and epigenetic technology, to discoveries in human disease and clinical epigenetics, the nature and applications of the science is presented for those with interests ranging from the fundamental basis of epigenetics, to therapeutic interventions for epigenetic-based disorders. Timely and comprehensive collection of fully up-to-date reviews on epigenetics that are organized into one volume and written by leading figures in the field Covers the latest advances in many different areas of epigenetics, ranging from basic aspects, to technologies, to clinical medicine Written at a verbal and technical level that can be understood by scientists and college students Updated to include new epigenetic discoveries, newly approved therapeutics, and clinical trials
Download or read book Protein protein and Protein DNA Interactions of the Human C2H2 Zinc Finger Proteins written by Ernest Radovani and published by . This book was released on 2019 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: TFs (transcription factors) bind DNA in a sequence specific manner and regulate transcription. Humans encode ~1600 TFs, which have been identified almost entirely on the basis of a putative DNA-binding domain. Knowledge of the mechanisms by which they regulate transcription is sparse. TFs sometimes contain effector domains, but often utilize uncharacterized regions to recruit various cofactors, including chromatin modifiers, components of the general transcription machinery, and other TFs. This thesis focuses on describing the interactome of C2H2-ZNFs (C2H2 zinc finger proteins) which have been classified as TFs due to their ability to bind DNA and regulate transcription in some studied cases. With ~750 proteins, C2H2-ZNFs have greatly expanded in mammals and are the largest and least well characterized subfamily of DNA-binding proteins in humans. Through AP/MS (affinity purification and mass spectrometry), we have identified PPIs (protein-protein interactions) for 345 C2H2-ZNFs and, through ChIP-seq (chromatin immunoprecipitation followed by next generation sequencing), we have identified genomic binding sites for 217 C2H2-ZNFs. From the AP/MS data it appears that, overall, the C2H2-ZNFs exhibit a diverse set of interactions that may give them the ability to perform dual functions in transcription activation and repression, therefore suggesting that they may act as TFs. However, they also exhibit PPIs suggestive of roles additional to what the conventional definition of a TF entails, such as in AS (alternative splicing), which provides evidence that they are multifunctional proteins. Furthermore, C2H2-ZNFs are enriched for binding to AS exons and 3'-ends of genes, providing additional evidence for involvement in co-transcriptional processes. Strikingly, from the AP/MS data, C2H2-ZNFs extensively associate with each other and, based on their DNA-binding patterns, I show that interacting pairs may co-bind DNA, since they bind in closer proximity to each other in the genome compared to pairs that were not found to interact. Lastly, by integrating the PPI data with ChIP-seq, ChIA-PET (chromatin interaction analysis by paired-end tag sequencing), and HiC data, I show that C2H2-ZNF interacting pairs may mediate long range DNA interactions and thus organize chromatin architecture. Altogether, this work provides a snapshot of the C2H2-ZNF interactome and its potential to regulate gene expression.
Download or read book Translating Gene Therapy to the Clinic written by Jeffrey Laurence and published by Academic Press. This book was released on 2014-11-14 with total page 347 pages. Available in PDF, EPUB and Kindle. Book excerpt: Translating Gene Therapy to the Clinic, edited by Dr. Jeffrey Laurence and Michael Franklin, follows the recent, much-lauded special issue of Translational Research in emphasizing clinical milestones and critical barriers to further progress in the clinic. This comprehensive text provides a background for understanding the techniques involved in human gene therapy trials, and expands upon the disease-specific situations in which these new approaches currently have the greatest therapeutic application or potential, and those areas most in need of future research. It emphasizes methods, tools, and experimental approaches used by leaders in the field of translational gene therapy. The book promotes cross-disciplinary communication between the sub-specialties of medicine, and remains unified in theme. Presents impactful and widely supported research across the spectrum of science, method, implementation and clinical application Offers disease-based coverage from expert clinician-scientists, covering everything from arthritis to congestive heart failure, as it details specific progress and barriers for current translational use Provides key background information from immune response through genome engineering and gene transfer, relevant information for practicing clinicians contemplating enrolling patients in gene therapy trials
Download or read book Interaction of the Zinc finger Protein ADR1 with DNA written by Arri Eisen and published by . This book was released on 1990 with total page 288 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Engineered Zinc Finger Proteins written by Joel P. Mackay and published by Humana. This book was released on 2016-08-23 with total page 500 pages. Available in PDF, EPUB and Kindle. Book excerpt: Among the many types of DNA binding domains, C2H2 zinc finger proteins (ZFPs) have proven to be the most malleable for creating custom DNA-binding proteins. In Engineered Zinc Finger Proteins: Methods and Protocols, expert researchers from some of the most active laboratories in this field present detailed methods, guidance, and perspectives. The volume contains sections covering the engineering of ZFPs, methods for the creation, evaluation, and delivery of artificial transcription factors (ATFs), methods for the creation and evaluation of zinc finger nucleases (ZFNs), and a collection of the several applications and assays beyond ATFs and ZFNs, including zinc finger transposases and ChIP-seq methodology amongst other subjects. Written in the highly successful Methods in Molecular BiologyTM series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls. Comprehensive and cutting-edge, Engineered Zinc Finger Proteins: Methods and Protocols aims to aid both seasoned practitioners and new investigators with its vital methods and insights as they seek to create the next generation of engineered ZFPs and applications.
Download or read book The Protein Binding Potential of C2H2 Zinc Finger Domains written by and published by . This book was released on 2008 with total page 372 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cys2-His2 (C2H2) zinc finger domains were originally identified as DNA binding domains, and uncharacterized domains are typically assumed to bind DNA. However, a growing body of evidence suggests an important and widespread role for these domains in protein binding. Over 100 C2H2 zinc finger-protein interactions have been described. This study uses common bioinformatics tools to identify sequence features that predict a DNA- or protein-binding function. Several issues, including uncertainties about the full functional capabilities of the zinc fingers, complicated these efforts. Therefore, an unbiased approach which directly examined the potential for zinc fingers to facilitate DNA or protein interactions was used to determine the full functional capabilities of the C2H2 domains in two model proteins, human OLF-1/EBF associated zinc finger (OAZ) protein and Zif268. OAZ contains 30 zinc fingers in six clusters, some of which have been previously indicated in DNA or protein interactions. Zif268 is a well-known DNA binding protein with three C2H2 domains. DNA binding was assessed using a target site selection (CAST) assay, and protein binding was assessed using a yeast two-hybrid assay. Results indicate that clusters known to bind DNA could facilitate specific protein interactions, but clusters known to bind protein did not facilitate specific DNA interactions, indicating that DNA binding is a more restricted function of zinc fingers than has previously beenrecognized. These results also suggest that the role of C2H2 zinc finger domains in protein interactions has probably been underestimated. The implication of these findings for the prediction of zinc finger function is discussed.
Download or read book Zinc Biochemistry Physiology and Homeostasis written by W. Maret and published by Springer Science & Business Media. This book was released on 2013-11-11 with total page 232 pages. Available in PDF, EPUB and Kindle. Book excerpt: Chapters in this book review the remarkable advances in the field of zinc biology over the last decade. Zinc is essential for life, in particular for growth and development, through its role in hundreds of zinc enzymes and thousands of zinc proteins. Its catalytic, structural, and regulatory functions in these proteins impact metabolism, gene expression, and signal transduction, including neurotransmission. Among the micronutrients, zinc may rank with iron as to its importance for public health. The topics covered range from single molecules to cells and to whole organisms: the chemistry, design, and application of fluorophores for the determination of cellular zinc; the role of zinc in proliferation, differentiation, and apoptosis of cells; proteins that transport, sense, and distribute zinc and together form a cellular homeostatic system; the coordination chemistry of zinc in metalloproteins; the role of zinc in the brain as a neuromodulator/transmitter; the dependence of the immune system on zinc; zinc homeostasis in the whole human body.
Download or read book Genomics Circuits and Pathways in Clinical Neuropsychiatry written by Thomas Lehner and published by Academic Press. This book was released on 2016-06-07 with total page 798 pages. Available in PDF, EPUB and Kindle. Book excerpt: This foundational work comprehensively examines the current state of the genetics, genomics and brain circuitry of psychiatric and neurological disorders. It consolidates discoveries of specific genes and genomic regions associated with these conditions, the genetic and anatomic architecture of these syndromes, and addresses how recent advances in genomics are leading to a reappraisal of the biology underlying clinical neuroscience. In doing so, it critically examines the promise and limitations of these discoveries toward treatment, and to the interdisciplinary nature of understanding brain and behavior. Coverage includes new discoveries regarding autism, epilepsy, intellectual disability, dementias, movement disorders, language impairment, disorders of attention, schizophrenia, and bipolar disorder. Genomics, Circuits, and Pathways in Clinical Neuropsychiatry focuses on key concepts, challenges, findings, and methods in genetics, genomics, molecular pathways, brain circuitry, and related neurobiology of neurologic and psychiatric disorders. Provides interdisciplinary appeal in psychiatry, neurology, neuroscience, and genetics Identifies key concepts, methods, and findings Includes coverage of multiple disorders from autism to schizophrenia Reviews specific genes associated with disorders Discusses the genetic architecture of these syndromes Explains how recent findings are influencing the understanding of biology Clarifies the promise of these findings for future treatment
Download or read book DNA Topology written by Andrew D. Bates and published by Oxford University Press, USA. This book was released on 2005 with total page 224 pages. Available in PDF, EPUB and Kindle. Book excerpt: "A key aspect of DNA is its ability to form a variety of structures, this book explains the origins and importance of such structures"--Provided by publisher.
Download or read book Molecular and Cellular Effects of Nutrition on Disease Processes written by Grant N. Pierce and published by Springer Science & Business Media. This book was released on 2013-04-17 with total page 227 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume contains the proceedings of the 2nd World Conference of the International Society for Molecular Nutrition & Therapy. This conference was held on August 2-4, 1997, in Winnipeg, Canada. The goal of the conference was to advance our knowledge concerning the molecular events which link nutrition to various disease processes in the body. This volume represents an important compilation of unique articles addressing the molecular and cellular basis for the nutritional and therapeutic treatment of five general disease processes.
Download or read book Metal Ligation in ZIF268 a Zinc Finger Protein Effects on DNA Binding written by Andrew F. D. Green and published by . This book was released on 1996 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Zinc fingers are among the major structural motifs found in proteins that are involved in eukaryotic gene regulation. Many of these zinc finger domains are involved in DNA binding. In the first portion of this study, I focused on a metal replacement analysis of zif268, a murine DNA-binding protein which contains three (Cys)2(His)2 zinc fingers. In the second portion of this study, I tested whether the Zn-coordinating (Cys)2(His)2 motif found in the three zinc fingers of zif268 could be replaced by a (Cys)4 motif while still preserving DNA recognition. (Cys)2(His)2 to (Cys)4 mutations were generated in each of the three zinc fingers of zif268 individually, as well as in fingers 1 and 3 and fingers 2 and 3 together. The protein-DNA interaction was examined in greater detail by using a methylation-interference a methylation-interference assay. Taken together, the work presented here enhances our understanding of the relationship between metal ligation and DNA-binding by zinc fingers, and ultimately the role these processes play in gene regulation. (Abstract shortened by UMI.).
Download or read book Investigating the Interaction of Zinc finger Peptides and Nicked DNA Using Phage Display written by Rachel Maria Guerra and published by . This book was released on 2013 with total page 92 pages. Available in PDF, EPUB and Kindle. Book excerpt: Recognition of structural features of DNA such as gaps, nicks and abasic sites is critical for many DNA-binding proteins, such as those involved in DNA damage repair. This study explores a novel strategy to model these protein-DNA interactions using phage display. Phage display has been commonly used to identity zinc fingers that bind to DNA sequences, but selection of peptides that binding to specific DNA structures has not been reported in the literature. A phage library of 109 variants was created based on one of three zinc finger domains of the DNA repair protein poly (ADP-ribose) polymerase I. The library, engineered at the DNA level using synthetic oligonucleotides and containing eight randomized codons in the "loop" region of the zinc finger, was cloned into a commercial T7 phagemid vector. Four rounds of selection against an immobilized nicked DNA target were carried out, the last of which resulted in 62% retention of phage. Sequencing of selected phage from this highly enriched library revealed convergence to a single 39-mer peptide, a truncated version of the designed 85-mer zinc finger. This peptide will be purified from transformed bacterial culture and its binding activity will be measured using fluorescence polarization. This project seeks to provide insight into the structure-function relationship of proteins that bind specific DNA structures and could possibly lead to a small peptide with diagnostic or therapeutic applications.
