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Structural Proteomics: High-Throughput Methods

Handbook / Manual

Series: Methods in Molecular Biology Volume: 426

Edited By: Bostjan Kobe, Mitchell Guss and Thomas Huber

400 pages, Illus

Humana Press

Hardback | Feb 2008 | #171231 | ISBN-13: 9781588298096
Availability: Usually dispatched within 1-2 weeks Details
NHBS Price: £123.00 $155/€145 approx

About this book

Structural genomics is a newly emerging field that has arisen following the successful footsteps of the major sequencing efforts generally bundled under the heading "genomics". In Structural Proteomics: High Throughput Methods, readers are provided with a current view of all aspects of the 'pipeline' that takes protein targets to structures and how these have been optimized. This volume includes chapters describing in-depth the individual steps in the Structural Genomics pipeline, as well as overviews of individual Structural Genomics initiatives. Topics include Target Selection for structural genomics, Protein structure modeling, High-throughput cloning, Mass Spectrometry modeling. Structural Proteomics: High Throughput Methods, encourages its readers to access further details on the methodologies in on-line resources as well as in cited literature making it an invaluable resource. Most methods in this important book are as amenable to small laboratories as to large consortia, and do not require major investments in facilities. This essential volume provides insight into the diversity of approaches adopted by different laboratories and proves that 'high throughput' is really the defining characteristic of structural genomics.

From the reviews: "This book compiles an impressive array of contributions from a variety of contributors ! usually in a format that is accessible to any jobbing structural biologist, or those other molecular biologists with an linking to press their molecular targets into crystal screens or NMR tubes. ! In sum, this is a book it is useful to have to hand ! ." (Paul C. Driscoll, ChemBioChem, Issue 9, August, 2008) "This book ... details some of the 'tricks of the trade' involved in the field of structural genomics. ... This will be a useful text for laboratories already involved in fields covered in the book who want to increase the number of projects in the lab or for those who want to expand into neighbouring fields." (Darren Thompson, Microbiology Today, November, 2008)


Contents

Target selection for structural genomics: An Overview.- A General target selection method for crystallographic proteomics.- Target Selection: Triage in the Structural Genomics Battlefield.- Data Management in Structural Genomics: An Overview.- Data deposition and annotation at the Worldwide Protein Data Bank.- Prediction of protein disorder.- Protein domain prediction.- Protein Structure Modeling With MODELLER.- High throughput cloning with restriction enzymes.- Automated recombinant protein expression screening in Escherichia coli.- From no expression to high-level soluble expression in Escherichia coli by screening a library of the target protein with randomized N-terminus.- Application of High-Throughput Methodologies to the Expression of Recombinant Proteins in E. coli.- A high-throughput platform for eukaryotic genes.- High-Throughput production of recombinant human proteins for crystallography.- Assembly of protein complexes by co-expression in prokaryotic and eukaryotic hosts.- Cell-free protein synthesis for analysis by NMR spectroscopy.- A medium or high-throughput protein refolding assay.- Structural Proteomics of Membrane Proteins: A Survey of Published Techniques and Design of a Rational High-Throughput Strategy.- Methods for protein characterization by mass spectrometry, thermal shift (ThermoFluor) assay, and multi-angle or static light scattering.- High-Throughput Methods for Analyzing Transition Metals in Proteins on a Microgram Scale.- High Throughput Screening of Purified Proteins for Enzymatic Activity.- Strategies for Improving Crystallization Success.- Protein crystallization in restricted geometry: Advancing old ideas for modern times in structural proteomics.- Fluorescence Approaches to Growing Macromolecule Crystals.- Efficient Macromolecular Crystallization using Microfluidics and Randomized Design of Screening Reagents.- Increasing protein crystallization success with heterogeneous nucleating agents.- High-Throughput pH Optimization of Protein Crystallization.- Automated Structure Solution with the PHENIX Suite.- NMR Screening for Rapid Protein Characterization in Structural Proteomics.- Micro-coil NMR spectroscopy - a novel tool for biological high-throughput NMR spectroscopy.- Protein Structure Determination Using a Combination Of Cross-linking, Mass Spectrometry and Molecular Modeling.- Structural Genomics of Minimal Organisms: Pipeline and Results.- Structural Genomics of Pathogenic Protozoa: An Overview.- High-Throughput Crystallography at SGC Toronto: an overview.- The Structural Biology and Genomics Platform in Strasbourg: An overview.- Bacterial Structural Genomics Initiative: Overview of Methods and Technologies Applied to the Process of Structure Determination.- High-Throughput Protein Production and Crystallization at NYSGXRC.- Overview of the Pipeline for Structural and Functional Characterization of Macrophage Proteins at the University of Queensland.- Structural Genomics of the Bacterial Mobile Metagenome: An Overview.

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