Assignment to a family or subfamily within the TC system often allows prediction of substrate type with confidence [13, 20, 135–137]. When an expected transport protein constituent of a multi-component transport system could not be identified with BLASTP, tBLASTn was performed because such expected proteins are sometimes undetectable by BLASTP due to sequencing errors, sequence divergence, or pseudogene formation. Transport proteins thus obtained were systematically analyzed for unusual properties using published [132] and unpublished in-house software. Unusual properties can result from events such as genetic deletion and fusion, sometimes resulting in the gain or loss of extra domains or the generation of multifunctional

proteins. Such results can be reflective of the actual protein sequence, but can also be artifactual, due to sequencing errors or incorrect initiation codon assignment. In the latter cases, but not the former, selleck chemical the protein sequences were either corrected when possible or eliminated from our study. This theoretical bioinformatics study does not contain any experimental

research that requires the approval of an ethics committee. Acknowledgements We thank Carl Welliver and Maksim Shlykov for valuable assistance in the preparation of this manuscript. This work was supported by NIH Grant GM077402. Electronic supplementary material Additional file 1: Table S1: Sco transport proteins. Detailed description of Sco Ipatasertib purchase transport proteins and their homologues in TCDB, including comparison scores obtained via G-Blast and GSAT, Phosphoglycerate kinase substrate, substrate class, organism, phylum, and organismal domain. Proteins are organized from lowest to highest TC#. (DOCX 205 KB) Additional file 2: Table S2: Mxa transport proteins. Detailed description of Mxa transport proteins and their homologues in TCDB, including comparison scores obtained via G-Blast and GSAT, substrate, substrate class, organism, phylum, and organismal domain. Proteins are organized from lowest to highest TC#. (DOCX 133 KB) Additional file 3: Table S3: Chromosomal

distribution of Sco transporters. Sco transport proteins distributed by chromosomal arms and core. (DOCX 21 KB) References 1. de Hoon MJ, Eichenberger P, Vitkup D: Hierarchical evolution of the bacterial sporulation network. Curr Biol 2010,20(17):R735–745.PubMedCentralPubMed 2. Flardh K, Buttner MJ: Streptomyces morphogenetics: dissecting differentiation in a filamentous bacterium. Nat Rev Microbiol 2009,7(1):36–49.PubMed 3. Gogolewski RP, Mackintosh JA, Wilson SC, Chin JC: Immunodominant antigens of zoospores from ovine isolates of Dermatophilus congolensis. Vet Microbiol 1992,32(3–4):305–318.PubMed 4. Setubal JC, dos Santos P, Goldman BS, Ertesvag H, Espin G, Rubio LM, Valla S, Almeida NF, Balasubramanian D, Cromes L, et al.: Genome sequence of Azotobacter vinelandii, an obligate aerobe specialized to support diverse anaerobic metabolic processes.