Ribosome Profiling: Methods and Protocols, Labunskyy Vyacheslav M.

Автор: Kumar, Vijay
Название: Emerging Concepts In Ribosome Structure, Biogenesis, And Function
ISBN: 012816364X ISBN-13(EAN): 9780128163641
Издательство: Elsevier Science
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Ribosome biogenesis is the process of making ribosomes which are responsible for mRNA translation into proteins. It is a tightly regulated process closely linked to nearly all biochemical and cellular processes, including cell division, growth, and development. Emerging Concepts in Ribosome Structure, Biogenesis, and Function provides a synthesized overview of all the parts engaged in this process. The book begins by providing an introduction to the ribosome factory, its origin, and its evolution of translation. It then goes on to describe ribosome structure including subunits, RNA, and protein components. Ribosome biogenesis and its emergence as a frontier research area for translational potential in cancer and other diseases are also discussed. In addition, the book explores current developments in ribosome research like the emergence of ribosomopathies, how deregulation of ribosome biogenesis can impact disease mechanisms and aging, and the discovery of specialized ribosomes that have specific functions that may translate differentially with consequences on normal and pathological processes. Emerging Concepts in Ribosome Structure, Biogenesis, and Function provides fundamental coverage and emerging research on ribosomes, biogenesis, and their structure and function and is a resourceful introduction for new researchers and those engaged in interdisciplinary ribosomal research.

Автор: H. Bielka; H. Bielka; U. A. Bommer; H. Welfle; F.
Название: The Eukaryotic Ribosome
ISBN: 364268274X ISBN-13(EAN): 9783642682742
Издательство: Springer
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Описание: Contents References 11 II. A short historical survey 13 References 16 III. Ribosomes within the cell 20 1. Proportion of ribosomes in tissues 21 2. Free and membrane-bound ribo- mes 22 3. Ribosomes in nucleoli 26 4. Structure of polysomes in the cell 26 5. Ribosomal crystals 33 6. References 33 IV. Some general properties of ribosomes 41 1. Physical characteristics 41 2. Chemical characteristics 43 3. References 44 V. Morphology of ribosomes and poly- somes 47 1. Electron microscopy 47 a) The small ribosomal subunit 48 b) The large ribosomal subunit 48 c) The monomeric ribosome 52 d) Three-dimensional models 54 e) Polysomes 55 2. Small-angle X-ray scattering 55 a) The monomeric ribosome 56 b) Polysomes 57 3. References 57 VI. Chemical components 61 1. Ribosomal proteins 61 a) Electrophoretic separation and num- ber 61 b) Preparation of single ribosomal pro- teins 67 c) Molecular weights 68 d) Amino acid composition and amino acid sequences 71 e) Stoichiometry 71 f) Posttranslational modifications 72 g) Comparison of ribosomal proteins of different tissues 73 h) Species specificities and evolution 74 i) Ribosomal proteins of mitochondria and chloroplasts 75 k) Ribosomal mutants with altered pro- teins 75 5 3. Formation of preribosomal 2. Phosphorylation of ribosomal prote- particles 139 ins 76 4. References 141 a) In vitro phosphorylation and de- phosphorylation 76 VIII. Dissociation - reassociation processes b) In vivo phosphorylation 77 of ribosomal particles 151 c) Phosphorylation of ribosomal pro- tein S 6 78 1.

Автор: Matthews David
Название: Proteins of the Mammalian Mitochondrial Ribosome
ISBN: 0530018659 ISBN-13(EAN): 9780530018652
Издательство: Неизвестно
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Описание: Abstract:

2D-PAGE of bovine and rat mitoribosomal proteins

Dissertation Discovery Company and the University of Florida are dedicated to making scholarly works more discoverable and accessible throughout the world. This dissertation, "Proteins of the Mammalian Mitochondrial Ribosome" by David Earl Matthews, was obtained from the University of Florida and is being sold with permission from the author. A free digital copy of this work may also be found in the university's institutional repository, the IR@UF. The content of this dissertation has not been altered in any way. We have altered the formatting in order to facilitate the ease of printing and reading of the dissertation.

Автор: Olovsson Ivar Et Al
Название: From A Grain Of Salt To The Ribosome: The History Of Crystallography As Seen Through The Lens Of The Nobel Prize
ISBN: 9814623113 ISBN-13(EAN): 9789814623117
Издательство: World Scientific Publishing
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Описание: This book is published to celebrate the International Year of Crystallography 2014, as proclaimed by the United Nations.

Автор: Aleksandr S. Spirin; Lidija P. Gavrilova
Название: The Ribosome
ISBN: 3540046550 ISBN-13(EAN): 9783540046554
Издательство: Springer
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Описание: This monograph is neither a historical outline of the development of the concepts of protein biosynthesis and the structure and functions of the ribosomes, nor an exhaustive survey of the literature on these questions.

Автор: A.A. Hadjiolov
Название: The Nucleolus and Ribosome Biogenesis
ISBN: 3709187443 ISBN-13(EAN): 9783709187449
Издательство: Springer
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Автор: Chen Davidovich
Название: Targeting Functional Centers of the Ribosome
ISBN: 364226705X ISBN-13(EAN): 9783642267055
Издательство: Springer
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Описание:

1. Introduction

1.1 Ribosomal antibiotics: function, activity and selectivity

1.2 Pleuromutilins: a class of PTC ribosomal antibiotics for clinical use

1.3 Structural basis for cross-resistance between ribosomal PTC antibiotics

1.4 Oligonucleotides as ribosomal inhibitors and as tools for structural and functional study

1.5 Minimal ribosomal components with PTC structure and function

2. Methods

2.1 Structural study of pleuromutilin antibiotics

2.1.1 Crystallization and data collection

2.1.2 Data processing, structure solution and refinement

2.2 Comparative structural analysis to reveal the structural basis for cross-resistance between PTC antibiotics

2.3 Antisense oligonucleotides for targeting functional ribosomal centers

2.3.1 Database construction

2.3.2 In-vitro transcription-translation system for ribosome activity assay

2.3.3 Antisense oligonucleotides nomenclature

2.4 Minimal ribosomal components with PTC structure and function

2.4.1 In vitro RNA transcription

2.4.2 Study of dimerization tendency

2.4.3 Electrophoresis Mobility Shift Assay (EMSA)

2.4.4 Size Exclusion Chromatography (SEC) for the separation between dimer and monomer

2.4.5 Radiolabeling of substrates for Peptidyl Transferase activity assay

2.4.6 Assay for Peptidyl Transferase activity

2.4.7 RNA two-dimensional structure prediction

2.5 Numbering, Sequence Alignment, and Images.

3. Results

3.1 The structures of D50S/Pleuromutilins comlexes

3.2 Structural basis for cross resistance between ribosomal PTC antibiotics

3.3 Oligonucleotides as ribosomal inhibitors and as tools for structural and functional study

3.3.1 Correlation between IC50 and various ODN parameters

3.3.2. Effect of ODN length

3.4 Minimal ribosomal components with PTC structure and function

3.4.1 Construct design

3.4.2 Study of dimerization tendency

4. Discussion

4.1 Pleuromutilins

4.1.1 Induced-fit mechanism for pleuromutilin binding

4.1.2 C14 extension is located in the PTC void.

4.1.3 Pleuromutilins resistance

4.1.4 Pleuromutilins selectivity acquired by remote interactions

4.2 Structural basis for cross resistance between ribosomal PTC antibiotics

4.2.1 Resistance to PTC antibiotics is frequently acquired by mutating remote nucleotides

4.2.2 U2504 at the crossroad of remote mutations networks that hamper binding of PTC antibiotics.

4.2.3 Second layer nucleotides

4.2.4 Third Layer Nucleotides

4.2.5 Resistance to various PTC antibiotics mediated by the same nucleotides

4.3 Oligonucleotides as ribosomal inhibitors and as tools for structural and functional studies

4.4 Minimal ribosomal components with PTC structure and function

5. References

6. Figures, tables and plots

Автор: Julie A. Douthwaite; Ronald H. Jackson
Название: Ribosome Display and Related Technologies
ISBN: 1493958720 ISBN-13(EAN): 9781493958726
Издательство: Springer
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Описание: Display technologies have become a very powerful way of generating therapeutic lead molecules and specific reagents for increasing our understanding of biology; however, despite being first described shortly after phage display, the use of ribosome display and related methods have been much less widespread. Since this is in part due to the complexity of the methods, Ribosome Display and Related Technologies: Methods and Protocols seeks to extend their use by collecting expert contributions describing these detailed protocols. The protocols described range from well-established methods that have been used for a decade to generate high affinity antibodies, which are already in the clinic, to methods that are in their early stages of application such as display of peptides incorporating non-canonical amino acids. Written in the highly successful Methods in Molecular Biology™ series format, 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. Invaluable and easy to use, Ribosome Display and Related Technologies: Methods and Protocols will be of great benefit to those with general molecular biology or protein engineering experience who wish to select peptides or proteins by display, those with phage display experience who would benefit from the application of ribosome display, as well as those with some ribosome display experience who would like to expand the range of applications to which they are applying the technology.

Автор: Posch Anton
Название: Proteomic Profiling: Methods and Protocols
ISBN: 1071611852 ISBN-13(EAN): 9781071611852
Издательство: Springer
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Описание: This volume in the Encyclopedia of Sustainability Science and Technology, Second Edition, describes the breadth of science and engineering knowledge critical to advancing sustainable built environments, from architecture and design, mechanical engineering, lighting, and materials to water and energy, public policy, and economics.

Автор: Espina Virginia
Название: Molecular Profiling: Methods and Protocols
ISBN: 1493983601 ISBN-13(EAN): 9781493983605
Издательство: Springer
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Описание:

1. Tumor Staging and Grading: A Primer

Автор: Rani Sweta
Название: Microrna Profiling: Methods and Protocols
ISBN: 1493982257 ISBN-13(EAN): 9781493982257
Издательство: Springer
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Описание: "Published In: United States, 07 December 2016 " --Distributor`s website.

Автор: Theodoridis Georgios A., Gika Helen G., Wilson Ian D.
Название: Metabolic Profiling: Methods and Protocols
ISBN: 1493976427 ISBN-13(EAN): 9781493976423
Издательство: Springer
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Описание:

Preface...

Table of Contents...

Contributing Authors...

Part I Fundamentals

1. Metabolic Profiling: Topic, Challenges, Perspective

Helen G. Gika, Georgios A. Theodoridis, and Ian D. Wilson