Classifying Protein Specific Residue Structures Based on Graph Mining

We proposed a 3-D protein structure using a simple and connected graph, where nodes indicate amino acids and edges represent contact distances between amino acids. Based on these graph structures, we present a graph mining algorithm to determine the crucial subgraphs in these graphs, which can be ap...

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Veröffentlicht in:IEEE access 2018, Vol.6, p.55828-55837
Hauptverfasser: Hsieh, Sun-Yuan, Lee, Chia-Wei, Yang, Zong-Ying, Wang, Heng-Wei, Yu, Jun-Han, Chan, Bo-Cheng, Ye, Tai-Ling
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Sprache:eng
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Zusammenfassung:We proposed a 3-D protein structure using a simple and connected graph, where nodes indicate amino acids and edges represent contact distances between amino acids. Based on these graph structures, we present a graph mining algorithm to determine the crucial subgraphs in these graphs, which can be applied to classify protein structural families. The proposed algorithm was compared with BLAST, BLAT, and DALI. Moreover, an experiment was conducted, in which characteristic sub-structural patterns were found in several protein families within the Protein Data Bank.
ISSN:2169-3536
2169-3536
DOI:10.1109/ACCESS.2018.2872496