Tpg sequence analysis.

<p>The sequences of Tpg homologs encoded by various <i>Streptomyces</i> chromosomes and linear plasmids, including translation products of pseudogenes, are aligned. The chromosome-encoded Tpgs are designated by three-letter abbreviations of the species (Sli, <i>S. lividans</i>; Sav, <i>S. avermitilis</i>; Sro, <i>S. rochei</i>; Ssc, <i>S. scabies</i>), the plasmid-encoded Tpgs by the plasmid names and the pseudogenes by the designations in the sequence databases or publications. Tpgs encoded by the same replicon are distinguished by their gene designations. Sources of the sequences are: <i>S. coelicolor</i> chromosome <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0056322#pone.0056322-Yang1" target="_blank">[7]</a>, <i>S. lividans</i> chromosome <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0056322#pone.0056322-Bao1" target="_blank">[6]</a>, <i>S. avermitilis</i> chromosome and SAP1 plasmid <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0056322#pone.0056322-Ikeda1" target="_blank">[10]</a>, pSV2 plasmid (pSV2.82) in <i>S. violaceoruber</i> (GenBank accession number NC_004934), pFRL1 plasmid in <i>Streptomyces</i> sp. FR1 <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0056322#pone.0056322-Zhang1" target="_blank">[45]</a>, <i>S. rochei</i> chromosome and pSLA2-L and pSLA2-M plasmids <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0056322#pone.0056322-Kinashi1" target="_blank">[46]</a>, SLP2 plasmid in <i>S. lividans </i><a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0056322#pone.0056322-Yang1" target="_blank">[7]</a>, <i>S. scabies</i> chromosome (<a href="http://www.sanger.ac.uk/Projects/S_scabies/" target="_blank">http://www.sanger.ac.uk/Projects/S_scabies/</a>), pSCL2 plasmid in <i>S. clavuligerus</i> (GenBank accession number AY392421). The amino acid numbering is that of Tpg^Sli. The lengths (in amino acid residues) of the Tpgs are indicated at the right. Conceptually translated products of pseudogenes proven in this study (SAP1_11, SLP2.38, and pSV2.102) and the apparent pseudogene, Sav_39 (with deletions of about 90 amino acids), are marked by asterisks. The structural and functional domains previously identified are indicated at the bottom: HIV reverse transcriptase (RT) domain; helix-turn-helix (HTH) domain; nuclear localization signal (NLS); and amphiphilic beta-sheet. Substitution mutations investigated in this study are placed above the sequence. Deletions are indicated by ‘Δ’. Multiple substitutions are boxed together. Mutations that inactivated Tpg are shown in red; those that did not, in green.