Optochemical Tools for Protein Dimerization in Living Cells

Optochemical Tools for Protein Dimerization in Living Cells
Author: Chanat Aonbangkhen
Publisher:
Total Pages: 516
Release: 2017
Genre:
ISBN:

Fundamental biological processes including cell division, migration, and death, are driven by protein interactions. Regulation of protein localization is one of the mechanisms cells utilize to control cellular events with high spatial and temporal precision. Therefore, several techniques have been developed to provide control of protein interactions and localization. A number of elegant approaches employ naturally light-responsive proteins, also known as optogenetics, to reversibly induce protein? protein binding interactions with subcellular precision. However, the application of these light-inducible protein systems to various intracellular locations beyond the plasma membrane has been limited. Moreover, to achieve sustained interactions in some applications, most of these optogenetic systems require continuous illumination, increasing the risk of phototoxicity. Another robust and widely utilized technique to control protein interactions via small molecules is the chemically-induced dimerization (CID) of proteins; the most classic example of this technique being rapamycin-induced dimerization. However, the lack of spatiotemporal control and reversibility in this system has necessitated the development of new dimerizers in the past two decades. By combining light-inducible features with the CID technique, we have created a novel platform to rapidly and reversibly induce protein dimerization using light with high specificity in living cells. This is accomplished with subcellular spatiotemporal resolution using a series of novel, cell-permeable, photoactivatable, and photocleavable chemical dimerizers. The modular design of our system has allowed us to tailor the properties of our molecules for studying various protein functions and biological pathways inside living cells. Furthermore, we demonstrate the utility of our system by applying it to manipulate dynamic biological events including organelle transport and spindle assembly checkpoint. This work establishes a foundation for optogenetic control over protein function and highlights the advantages of a hybrid chemical and genetic approach. We envision our tools to be readily adapted to experimentally probe complex signaling networks and other cellular processes that depend upon spatiotemporal regulation of protein localization on biologically-relevant timescales.

Optochemical Biology

Optochemical Biology
Author:
Publisher: Academic Press
Total Pages: 300
Release: 2019-07-30
Genre: Science
ISBN: 0128170298

Optochemical Biology, Volume 624, the latest release in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters on a variety of topics, including Cell Lineage Tracing in Zebrafish Embryos with an Expanded Genetic Code, Optical Control of Tumor Induction in the Zebrafish, Optogenetic Control by Pulsed Illumination, Optimizing the Photocontrol of bZIP Coiled Coils with Azobenzene Crosslinkers: Role of the Crosslinking Site, Site-Directed RNA Editing in Vivo Can Be Triggered by the Light-Driven Assembly of an Artificial Riboprotein, In Situ Formation of an Azo Bridge on Proteins Controllable by Visible Light, and much more. - Provides the authority and expertise of leading contributors from an international board of authors - Presents the latest release in the Methods in Enzymology series - Includes the latest information on optochemical biology

Chemical Tools for Imaging, Manipulating, and Tracking Biological Systems: Diverse Methods for Prokaryotic and Eukaryotic Systems

Chemical Tools for Imaging, Manipulating, and Tracking Biological Systems: Diverse Methods for Prokaryotic and Eukaryotic Systems
Author:
Publisher: Academic Press
Total Pages: 360
Release: 2020-05-14
Genre: Science
ISBN: 0128201487

Chemical Tools for Imaging, Manipulating, and Tracking Biological Systems: Diverse Methods for Prokaryotic and Eukaryotic Systems, Volume 638, the latest release in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. Sample chapters from this new release include In vitro characterization of the colibactin-activating peptidase ClbP enables development of a fluorogenic activity probe, Using FDAA probes to study cell division in Bacillus subtilis, Chemoenzymatic synthesis of UDP-sugars, Chemical tools for selective activity profiling of bacterial penicillin-binding proteins, Chemical Probes Reveal and Extraseptal Mode of Cross-linking in Staphylococcus Aureus, and much more. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in the Methods in Enzymology series Includes the latest information on retinoid signaling pathways

Mitosis and Meiosis Part A

Mitosis and Meiosis Part A
Author:
Publisher: Academic Press
Total Pages: 496
Release: 2018-05-24
Genre: Science
ISBN: 012814145X

Mitosis and Meiosis, Part A, Volume 144, a new volume in the Methods in Cell Biology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. Unique to this updated volume are chapters on Analyzing the Spindle Assembly Checkpoint in human cell culture, an Analysis of CIN, a Functional analysis of the tubulin code in mitosis, Employing CRISPR/Cas9 genome engineering to dissect the molecular requirements for mitosis, Applying the auxin-inducible degradation (AID) system for rapid protein depletion in mammalian cells, Small Molecule Tools in Mitosis Research, Optogenetic control of mitosis with photocaged chemical, and more. Contains contributions from experts in the field from across the world Covers a wide array of topics on both mitosis and meiosis Includes relevant, analysis based topics

Encyclopedia of Cell Biology

Encyclopedia of Cell Biology
Author:
Publisher: Academic Press
Total Pages: 2972
Release: 2015-08-07
Genre: Science
ISBN: 0123947960

The Encyclopedia of Cell Biology, Four Volume Set offers a broad overview of cell biology, offering reputable, foundational content for researchers and students across the biological and medical sciences. This important work includes 285 articles from domain experts covering every aspect of cell biology, with fully annotated figures, abundant illustrations, videos, and references for further reading. Each entry is built with a layered approach to the content, providing basic information for those new to the area and more detailed material for the more experienced researcher. With authored contributions by experts in the field, the Encyclopedia of Cell Biology provides a fully cross-referenced, one-stop resource for students, researchers, and teaching faculty across the biological and medical sciences. Fully annotated color images and videos for full comprehension of concepts, with layered content for readers from different levels of experience Includes information on cytokinesis, cell biology, cell mechanics, cytoskeleton dynamics, stem cells, prokaryotic cell biology, RNA biology, aging, cell growth, cell Injury, and more In-depth linking to Academic Press/Elsevier content and additional links to outside websites and resources for further reading A one-stop resource for students, researchers, and teaching faculty across the biological and medical sciences

Carbonic Anhydrase: Mechanism, Regulation, Links to Disease, and Industrial Applications

Carbonic Anhydrase: Mechanism, Regulation, Links to Disease, and Industrial Applications
Author: Susan C. Frost
Publisher: Springer Science & Business Media
Total Pages: 429
Release: 2013-10-22
Genre: Medical
ISBN: 9400773595

The study of carbonic anhydrase has spanned multiple generations of scientists. Carbonic anhydrase was first discovered in 1932 by Meldrum and Roughton. Inhibition by sulfanilamide was shown in 1940 by Mann and Keilin. Even Hans Krebs contributed to early studies with a paper in 1948 showing the relationship of 25 different sulfonamides to CA inhibition. It was he who pointed out the importance of both the charged and uncharged character of these compounds for physiological experiments. The field of study that focuses on carbonic anhydrase (CA) has exploded in recent years with the identification of new families and isoforms. The CAs are metalloenzymes which are comprised of 5 structurally different families: the alpha, beta, gamma, and delta, and epsilon classes. The alpha class is found primarily in animals with several isoforms associated with human disease. The beta CAs are expressed primarily in plants and are the most divergent. The gamma CAs are the most ancient. These are structurally related to the beta CAs, but have a mechanism more similar to the alpha CAs. The delta CAs are found in marine algae and diflagellates. The epsilon class is found in prokaryotes in which it is part of the carboxysome shell perhaps supplying RuBisCO with CO2 for carbon fixation. With the excitement surrounding the discovery of disease-related CAs, scientists have redoubled their efforts to better understand structure-function relationships, to design high affinity, isotype-specific inhibitors, and to delineate signaling systems that play regulatory roles over expression and activity. We have designed the book to cover basic information of mechanism, structure, and function of the CA families. The authors included in this book bring to light the newest data with regard to the role of CA in physiology and pathology, across phylums, and in unique environmental niches.

Frontiers in Biosensorics I

Frontiers in Biosensorics I
Author: F.W. Scheller
Publisher: Springer Science & Business Media
Total Pages: 302
Release: 1996-12-01
Genre: Science
ISBN: 9783764354756

Volume I provides an in-depth discussion of the most recent developments of crucical biosensor components. It concentrates on the interface between the analyte phase and the detector, namely, the implementation of novel recognition elements, including nucleic acids, and of leading-edge technology in the construction of responsive thin layers. Thus, the reader can obtain a foretaste of achievable future progress in the field.

Synthetic mRNA

Synthetic mRNA
Author: Robert E. Rhoads
Publisher: Humana
Total Pages: 0
Release: 2016-05-29
Genre: Medical
ISBN: 9781493936236

This volume presents detailed laboratory protocols for in vitro synthesis of mRNA with favorable properties, its introduction into cells by a variety of techniques, and the measurement of physiological and clinical consequences such as protein replacement and cancer immunotherapy. Synthetic techniques are described for structural features in mRNA that provide investigational tools such as fluorescence emission, click chemistry, photo-chemical crosslinking, and that produce mRNA with increased stability in the cell, increased translational efficiency, and reduced activation of the innate immune response. Protocols are described for clinical applications such as large-scale transfection of dendritic cells, production of GMP-grade mRNA, redirecting T cell specificity, and use of molecular adjuvants for RNA vaccines. 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 laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Synthetic mRNA: Production, Introduction into Cells, and Physiological Consequences is a valuable and cutting-edge resource for both laboratory investigators and clinicians interested in this powerful and rapidly evolving technology.

Caged Compounds

Caged Compounds
Author: Gerard Marriott
Publisher: Academic Press
Total Pages: 584
Release: 1998-06-22
Genre: Medical
ISBN:

The critically acclaimed laboratory standard for more than forty years, Methods in Enzymology is one of the most highly respected publications in the field of biochemistry. Since 1955, each volume has been eagerly awaited, frequently consulted, and praised by researchers and reviewers alike. More than 285 volumes have been published (all of them still in print) and much of the material is relevant even today--truly an essential publication for researchers in all fields of life sciences.