Protein Design

ISBN-13: 9781588295859 / Angielski / Twarda / 2006 / 300 str.

Raphael Guerois; Manuela Lopez de la Paz

Opis

Proteins have evolved through selective pressure to accomplish specific functions. The functional properties of proteins depend upon their thr- dimensional structures, which result from particular amino acid sequences folding into tightly packed domains. Thus, to understand and modulate protein function rationally, one definitely needs methods and algorithms to predict and decipher how amino acid sequences shape three-dimensional structures. Protein design aims precisely at providing the tools to achieve this goal. The predictive power of rational protein design methods has dramatically increased over the past five years. A broad range of studies now illustrate how the sequence of proteins and peptides can be tuned to engineer biological tools with intended properties (1 3). The extensive characterization of peptides and protein mutants has enormously benefited the understanding of protein sequence-to-structure relationships. Synergies between computational and experimental approaches have also added momentum to the advancing limits of design methods. The potential applications in fundamental biochemistry and in biotechnology justify the considerable excitement that this progress has generated within the research community. The field is probably mature enough so that expert knowledge can assist researchers of diverse disciplines to rationally create or modify their favorite protein. Thus, the aim of Protein Design: Methods and Protocols is to account for the most up-to-date protein design and engineering strategies so that readers can undertake their own projects with maximum confidence in a successful return. The basic concepts underlying rational design of proteins are intimately related to their three-dimensional structures."

Recenzje

"...provides a comprehensive guide to the methods used at every stage of the protein-design process..." - ChemBioChem

"...combines a thorough theoretical foundation with detailed protocols and will be invaluable to all researchers in the area, from graduate students to senior investigators." -ChemBioChem

Spis treści

I. Design of Structural Elementary Motifs Structure and Stability of the a-Helix: Lessons for Design Neil Errington, Teuku Iqbalsyah, and Andrew J. Doig De novo Design of Monomeric b-Hairpin and b-Sheet Peptides David Pantoja-Uceda, Clara M. Santiveri, and M. Angeles Jiménez De novo Proteins From Binary-Patterned Combinatorial Libraries Luke H. Bradley, Peter P. Thumfort, and Michael H. Hecht Non-Protein Amino Acids in the Design of Secondary Structure Scaffolds Radhakrishnan Mahalakshmi and Padmanabhan Balaram Design and Synthesis of b-Peptides With Biological Activity Marc J. Koyack and Richard P. Cheng II. Design of Entire Proteins and Protein Complexes Design of Miniproteins by the Transfer of Active Sites Onto Small-Size Scaffolds François Stricher, Loïc Martin, and Claudio Vita Consensus Design as a Tool for Engineering Repeat Proteins Tommi Kajander, Aitziber L. Cortajarena, and Lynne Regan Multiple Sequence Alignment as a Guideline for Protein Engineering Strategies Alan R. Davidson Sequence Search Methods and Scoring Functions, for the Design of Protein Structures Hocine Madaoui, Emmanuelle Becker, and Raphael Guerois Prediction of Protein-Protein Interaction Based on Structure Gregorio Fernandez-Ballester and Luis Serrano Electrostatic Design of Protein-Protein Association Rates Gideon Schreiber, Yossi Shaul, and Kay E. Gottschalk III. Design of Amyloidogenic Polypeptides and Amyloid Inhibitors Peptide Model Systems for Amyloid Fiber Formation: Design Strategies and Validation Methods Alexandra Esteras-Chopo, María Teresa Pastor, and Manuela López de la Paz Protein Misfolding Disorders and Rational Design of Antimisfolding Agents Lisbell D. Estrada, June Yowtak, and Claudio Soto Index

Blurb

Recent major advances in our understanding of modulating protein functions has led to the development of new methods and algorithms to predict and decipher how amino acid sequences shape three-dimensional structures. Protein Design: Methods and Applications presents the most up-to-date protein design and engineering strategies so that readers can undertake their own projects with a maximum chance of success.
The authors present integrated computational approaches that require various degrees of computational complexity, and the major accomplishments that have been achieved in the design and structural characterization of helical peptides and proteins. Other topics of discussion include: design of structural elementary motifs, entire proteins, and interfaces of protein complexes, and of amyloidogenic polypeptides and amyloid inhibitors.
Authoritative and cutting-edge, Protein Design: Methods and Applications will be of major interest to protein scientists, biochemists, and all experimentalists selecting the strategy most adaptable for their design problem.