Predicting Protein Contact Maps Directly from Primary Sequence without the Need for Homologs
نویسندگان
چکیده
منابع مشابه
Recovery of protein structure from contact maps.
BACKGROUND Prediction of a protein's structure from its amino acid sequence is a key issue in molecular biology. While dynamics, performed in the space of two-dimensional contact maps, eases the necessary conformational search, it may also lead to maps that do not correspond to any real three-dimensional structure. To remedy this, an efficient procedure is needed to reconstruct three-dimensiona...
متن کاملMining Protein Contact Maps
The 3D conformation of a protein may be compactly represented in a symmetrical, square, boolean matrix of pairwise, inter-residue contacts, or “contact map”. The contact map provides a host of useful information about the protein’s structure. In this paper we describe how data mining can be used to extract valuable information from contact maps. For example, clusters of contacts represent certa...
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Nucleosomes are the fundamental repeating unit of chromatin and comprise the structural building blocks of the living eukaryotic genome. Micrococcal nuclease (MNase) has long been used to delineate nucleosomal organization. Microarray-based nucleosome mapping experiments in yeast chromatin have revealed regularly-spaced translational phasing of nucleosomes. These data have been used to train co...
متن کاملPredicting protein-protein interactions from primary structure
MOTIVATION An ambitious goal of proteomics is to elucidate the structure, interactions and functions of all proteins within cells and organisms. The expectation is that this will provide a fuller appreciation of cellular processes and networks at the protein level, ultimately leading to a better understanding of disease mechanisms and suggesting new means for intervention. This paper addresses ...
متن کاملReconstruction of the protein structures from contact maps
The physical protein contact map is a distinctive signature of its folded structure and contains information on all the subtle interactions within contacts among residues responsible of protein stability/function. It is a common believe that an efficient prediction of protein contact maps from the protein chains will help in finding solutions to the protein folding problem. It is therefore urge...
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ژورنال
عنوان ژورنال: Biophysical Journal
سال: 2018
ISSN: 0006-3495
DOI: 10.1016/j.bpj.2017.11.245