Roten, CA and Barbier, B and Bilardi, A and Favre, A and Eugster, M and Greub, G (2008) A LRR protein family of Parachlamydia amoebophila UWE25: a genome invasion and highlights to the optimization of the genetic code. [Conference papers] In: Changins meeting 2008 - Genomes, cell biology and human diseases: what can we learn from pathogens?, November, 19 2008, Nyon, Switzerland.
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A family of 52 proteins of Parachlamydia amoebophila UWE25 is described. These proteins are called Pcps, since presenting 25-meric Penta-Cosa-Peptidic Leucine-Rich Repeats (LRRs). These carboxy-terminal alpha-helical units are similar to the 28-meric counterparts present in UWE25 Lgrs related to LRRs of eukaryotic Nods and Tlrs. Pcps are strongly conserved along their whole protein sequence. The major variation is the start/stop of the ORFs: while 8 are LRR-only, the 44 others start at various locations. Selected to avoid chaotic terminal peptides, the Pcp codon usage favouring stop codons after single nucleotide deletions reveals the optimization of ORFs according to protein secondary properties: preceded by another Pcp, 7 LRR-only Pcps are pseudogenes generated by framing errors. Other variations are the insertions/deletions of LRRs, and a particular genetic chromosomal clustering. Considering their sequence conservation, a relatively high G+C content and the paucity of bacterial homologs, we propose that Pcps recently spread within this chromosome. This study could serve as a model to understand the diversity/dissemination of eukaryotic LRR proteins.
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