[Analysis of the coding region for signal peptide-containing proteins in Pseudomonas syringae pv. tomato genome].
The completed 5 615 ORFs of chromosome sequence of Pseudomonas syringae pv. tomato were analyzed by SignalP 3.0. The result revealed that 679 ORFs consisted of putative secretary proteins with signal peptides. 107 ORFs of signal peptides have been named. The length of most signal peptides was different from 19 amino acids to 31 amino acids, and the most dominant one was 23 amino acids in length. The size of most ORFs varied between 101 ~ 400 amino acids. The frequency of particular amino acids in signal peptides by statistical approach was 48.54% for hydrophobic, 18.67% for uncharged, 24.54% for negative and 8.00% for positive amino acids. The most frequent amino acid was alanine, and the least was isoleucine. Three classes of signal peptides were found in the genome of P. syringae pv. tomato: 501 ORFs belong to secretary signal peptides, 36 ORFs belong to twin-arginine signal peptides, and 15 ORFs belong to lipoprotein signal peptides. Type IV pilin signal peptide and bacteriocins and pheronoes signal peptide was not found in the genome.
Liu
Ya-Ting
YT
Faculty of Agricultural and Biotechnology, Yunnan Agricultural University, Kunming 650201, China. liuyating999@yahoo.com.cn
Li
Zheng-Yue
ZY
Zhu
You-Yong
YY
Li
Cheng-Yun
CY
Li
Yong-Zhong
YZ
D000409:Alanine / Q000235:genetics; D000595:Amino Acid Sequence; D001412:Bacillus subtilis / Q000235:genetics; D001426:Bacterial Proteins / Q000235:genetics*; D016680:Genome, Bacterial; D007532:Isoleucine / Q000235:genetics; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics*; D021382:Protein Sorting Signals / Q000235:genetics*; D044224:Pseudomonas syringae / Q000235:genetics*
D001426:Bacterial Proteins; D021382:Protein Sorting Signals; D007532:Isoleucine; D000409:Alanine