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Dark Proteome Database: Studies on Dark Proteins
Version 1
: Received: 17 January 2019 / Approved: 21 January 2019 / Online: 21 January 2019 (08:50:48 CET)
A peer-reviewed article of this Preprint also exists.
Perdigão, N.; Rosa, A. Dark Proteome Database: Studies on Dark Proteins. High-Throughput 2019, 8, 8, doi:10.3390/ht8020008. Perdigão, N.; Rosa, A. Dark Proteome Database: Studies on Dark Proteins. High-Throughput 2019, 8, 8, doi:10.3390/ht8020008.
Abstract
The dark proteome as we define it, is the part of the proteome where 3D structure has not been observed either by homology modeling or by experimental characterization in the protein universe. From the 550.116 proteins available in Swiss-Prot (as of July 2016) 43.2% of the Eukarya universe and 49.2% of the Virus universe are part of the dark proteome. In Bacteria and Archaea, the percentage of the dark proteome presence is significantly less, with 12.6% and 13.3% respectively. In this work, we present the map of the dark proteome in Human and in other model organisms. The most significant result is that around 40%- 50% of the proteome of these organisms are still in the dark, where the higher percentages belong to higher eukaryotes (mouse and human organisms). Due to the amount of darkness present in the human organism being more than 50%, deeper studies were made, including the identification of ‘dark’ genes that are responsible for the production of the so-called dark proteins, as well as, the identification of the ‘dark’ organs where dark proteins are over represented, namely heart, cervical mucosa and natural killer cells. This is a step forward in the direction of the human dark proteome.
Keywords
Dark Proteome, Molecular Structure, Homology Modelling
Subject
Computer Science and Mathematics, Information Systems
Copyright: This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
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