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Formal Model of 3D Protein Structures for Functional Genomics, Comparative Bioinformatics, and Molecular Modeling

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High-Performance Computational Solutions in Protein Bioinformatics

Part of the book series: SpringerBriefs in Computer Science ((BRIEFSCOMPUTER))

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Abstract

This chapter shows how proteins can be represented in processes performed in scientific fields, such as functional genomics, comparative bioinformatics, and molecular modeling. The chapter begins with the general definition of protein spatial structure, which can be treated as a base for deriving other forms of representation. The general definition is then referenced to four representation levels of protein structure: primary, secondary, tertiary, and quaternary structure. This is followed by short description of protein geometry. And finally, at the end of the chapter, we will discuss energy features that can be calculated based on the general description of protein structure. The formal model defined in the chapter will be used in the description of algorithms presented in the following chapters of the book.

Proteins are where the action is. Arthur M. Lesk, 2010

The great promise of structural bioinformatics is predicted on the belief that the availability of high-resolution structural information about biological systems will allow us to precisely reason about the function of these systems and the effects of modifications or perturbations.

Jenny Gu, Philip E. Bourne, 2009

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  1. Institute of Informatics, Silesian University of Technology, Gliwice, Poland

    Dariusz Mrozek

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Mrozek, D. (2014). Formal Model of 3D Protein Structures for Functional Genomics, Comparative Bioinformatics, and Molecular Modeling. In: High-Performance Computational Solutions in Protein Bioinformatics. SpringerBriefs in Computer Science. Springer, Cham. https://doi.org/10.1007/978-3-319-06971-5_1

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  • DOI: https://doi.org/10.1007/978-3-319-06971-5_1

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