Distance Geometry Methods for Protein Structure Determination

Zachary Voller () and Zhijun Wu ()
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Zachary Voller: Iowa State University, Department of Mathematics
Zhijun Wu: Iowa State University, Department of Mathematics

Chapter Chapter 8 in Distance Geometry, 2013, pp 139-159 from Springer

Abstract: Abstract We review some recent advances for solving the distance geometry (DG) problems for protein structure determination. We focus on the development of a geometric buildup approach to the problems with sparse but exact distances and on the formulation of a generalized DG problem for the determination of structural ensembles with inexact distances or distance bounds. We describe the novel ideas of these approaches, show their potentials for the solution of large-scale problems in practice, and discuss their possible future developments. For some historical background, we also provide a brief introduction to the classical matrix decomposition method, the embedding algorithm, and the global smoothing algorithm for the solution of the DG problems with exact and inexact distances. Many other methods have been developed. We will not cover them all, but refer the readers to a list of papers, hoping to provide the readers with a relatively complete knowledge of the field.

Keywords: Nuclear Magnetic Resonance Experiment; Coordinate Vector; Distance Bound; Distance Geometry; Exact Distance (search for similar items in EconPapers)
Date: 2013
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Persistent link: https://EconPapers.repec.org/RePEc:spr:sprchp:978-1-4614-5128-0_8

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DOI: 10.1007/978-1-4614-5128-0_8

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