Red from the first base after the start codon to the last base before the

Red from the first base after the start codon to the last base before the stop codon. The 4 bp gene overlap is boxshaded light gray. (B) denotes genes found within prophage-like sequences and (T) denotes genes associated with transposons. ClustalWBOXSHADE multiple sequence alignment of subtilase motifs containing the catalytic triad is shown on the right PubMed ID:https://www.ncbi.nlm.nih.gov/pubmed/28380356 side: Homologous regions are box-shaded black (identical amino acid residues) and gray (conserved amino acid substitutions). Arrows point to the conserved residues Asp-HisSer of subtilases of the D-H-S family.Siddaramappa et al. BMC Genomics 2011, 12:570 http://www.biomedcentral.com/1471-2164/12/Page 13 ofencoding TbpA ([GenBank:HS_0449] and [GenBank: HSM_0750]) and TbpB ([GenBank:HS_0448] and [GenBank:HSM_0749]). In strain 129Pt, GI I was identified immediately upstream of the tbp locus. Furthermore, homologs of H. somni strain 649 TbpA2 were present in strain 129Pt ([GenBank:HS_0582], heme uptake protein) and strain 2336 ([GenBank:HSM_0931], TonB-dependent receptor; [GenBank:HSM_0932], TonB-dependent receptor plug; and [GenBank:HSM_1988], TonB-dependent lactoferrin and transferrin receptor). Pairwise BLAST analysis identified several other putative genes encoding proteins that may also be involved in iron transport. In strain 129Pt these included [GenBank: HS_0069], iron-regulated outer membrane protein; [GenBank:HS_0181], TonB-dependent outer membrane receptor; [GenBank:HS_0728], hemin receptor outer membrane protein; and [GenBank:HS_1306], iron-regulated outer membrane protein. In strain 2336 they included [GenBank:HSM_0047], TonB-dependent receptor; [GenBank:HSM_1168], TonB-dependent hemoglobin/transferrin/lactoferrin family receptor; [GenBank: HSM_1176], outer membrane hemin receptor protein, and [GenBank:HSM_1962], TonB-dependent receptor. Two of the genes, [GenBank:HS_1306] and [GenBank: HSM_1168], were strain-specific. Among others, HS_0582 was associated with a transposase ([GenBank: HS_0583]) and [GenBank:HSM_1168] was found near PR IV.Overabundance of genes encoding adhesin-like proteinsWithin this gene repertoire, [GenBank:HSM_0938] (388 aa) and [GenBank:HS_0589] (386 aa) were 85 similar to each other at the predicted protein level (75 identity, Score = 535 bits, E-value = 1e-156) and were associated with genes encoding putative ABC transporters ([GenBank:HSM_0939-0943] and [GenBank:HS_05900594], respectively, 99 identity, E-value = 0 to 5e-151). In addition, [GenBank:HSM_0077] (4063 aa) and [GenBank:HS_0209] (5143 aa) were 65 similar to each other at the predicted protein level (53 identity, Score = 1009 bits, E-value = 0) and were also associated with genes encoding putative ABC transporters ([GenBank: HSM_0079-0081] and [GenBank:HS_0210-0212], respectively, 99 identity, E-value = 2e-146 to 3e-132). Furthermore, although homologs of the H. influenzae fimbrial gene cluster (hifABCDE) were absent in both strains of H. somni, homologs of type IV pili genes (pilABCD) occurred in strains 2336 and 129Pt (e.g., [GenBank:HSM_0123] and [GenBank:HS_0250], [GenBank:HSM_0217] and [GenBank:HS_1430, [GenBank: HSM_0755 and [GenBank:HS_0457], and [GenBank: HSM_0756] and [GenBank:HS_0458], 40-69 identity, E-values = 1e-168 to 1e-38). In addition, both strains contained a gene that encoded a putative pseudopilin (pulG, [GenBank:HS_0264] and [GenBank:HSM_0137], 54 AnlotinibMedChemExpress Anlotinib identity to NTHI1109, E-value = 9e-51) that may facilitate type II secretion.Identification of genes encoding transcript.