@inbook{ebd373c1cfc646f1a19f286912f0f8a6,
title = "Large-scale identification and analysis of c-proteins",
abstract = "The restriction-modification system is a toxin–antitoxin mechanism of bacterial cells to resist phage attacks. High efficiency comes at a price of high maintenance costs: (1) a host cell dies whenever it loses restriction-modification genes and (2) whenever a plasmid with restriction-modification genes enters a na{\"i}ve cell, modification enzyme (methylase) has to be expressed prior to the synthesis of the restriction enzyme (restrictase) or the cell dies. These phenomena imply a sophisticated regulatory mechanism. During the evolution several such mechanisms were developed, of which one relies on a special C(control)-protein, a short autoregulatory protein containing an HTH-domain. Given the extreme diversity among restriction-modification systems, one could expect that C-proteins had evolved into several groups that might differ in autoregulatory binding sites architecture. However, only a few C-proteins (and the corresponding binding sites) were known before this study. Bioinformatics studies applied to C-proteins and their binding sites were limited to groups of well-known C-proteins and lacked systematic analysis. In this work, the authors use bioinformatics techniques to discover 201 C-protein genes with predicted autoregulatory binding sites. The systematic analysis of the predicted sites allowed for the discovery of 10 structural classes of binding sites.",
keywords = "Bioinformatics, C-proteins, DNA-binding proteins, Restriction-modification systems, Transcription regulation",
author = "Valery Sorokin and Konstantin Severinov and Gelfand, {Mikhail S.}",
note = "Publisher Copyright: {\textcopyright} Springer Science+Business Media, LLC 2010.",
year = "2010",
doi = "10.1007/978-1-60761-854-6_17",
language = "American English",
series = "Methods in Molecular Biology",
publisher = "Humana Press Inc.",
pages = "269--282",
booktitle = "Methods in Molecular Biology",
}