Hierarchy of Protein Loop-Lock Structures: A New Server for the Decomposition of a Protein Structure into a Set of Closed Loops

Simon Kogan, Zakharia Frenkel, Oleg Kupervasser, Zeev Volkovich

Department of Software Engineering, ORT Braude College, Karmiel, Israel.
Genome Diversity Center, Institute of Evolution, University of Haifa, Haifa, Israel.
Transist Video Limited Liability Company, Skolkovo, Russia.

DOI: 10.4236/cmb.2013.31001                

Abstract

HoPLLS (Hierarchy of protein loop-lock structures) (http://leah.haifa.ac.il/~skogan/Apache/mydata1/main.html) is a web server that identifies closed loops-a structural basis for protein domain hierarchy. The server is based on the loop-and-lock theory for structural organisation of natural proteins. We describe this web server, the algorithms for the decomposition of a 3D protein into loops and the results of scientific investigations into a structural “alphabet” of loops and locks.

Keywords

Structural Alphabet; Loop-Lock Structure; Web Server; Protein; Amino Acids

Conflicts of Interest

The authors declare no conflicts of interest.

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