Automatic classification of protein structure using the maximum contact map overlap metric

DOI10.3390/A8040850MaRDI QIDQ1736719zbMATH OpenOpenAlexFDO

Authors Rumen Andonov, Gunnar W. Klau, Mathilde Le Boudic-Jamin, Inken Wohlers, Hristo N. Djidjev

Publication date 26 March 2019

Published in Algorithms (Search for Journal in Brave)

Copyright license Creative Commons Attribution 4.0 International

Full work available at URL https://doi.org/10.3390/a8040850

zbMATH Keywords

scop\(k\)-nearest neighbor classificationmaximum contact map overlapprotein space metricsuperfamily classification

Mathematics Subject Classification ID

Classification and discrimination; cluster analysis (statistical aspects) (62H30) Applications of statistics to biology and medical sciences; meta analysis (62P10) Protein sequences, DNA sequences (92D20) Database theory (68P15) Algorithms on strings (68W32)

Recommendations

• A two-fold structural classification method for determining the accurate ensemble of protein structures
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Cites work

• A modification of the LAESA algorithm for approximated k-NN classification
• Distances between sets based on set commonality
• Solving maximum clique problem for protein structure similarity

Cited in

(6)

• A new family of global protein shape descriptors
• QUBO formulation for the contact map overlap problem
• A fuzzy sets based generalization of contact maps for the overlap of protein structures
• scientific article; zbMATH DE number 5560470 (Why is no real title available?)
• A new family of metrics for biopolymer contact structures
• Theory and Applications of Models of Computation

Describes a project that uses

Uses Software

• GR-Align
• TM-align

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