Table 1. Predictions of Intrinsic Disorder in Effectors and Whole Proteomes of Different Bacterial Species.
| Organism | Average Percentage of Disordered Residues |
Percentage of Proteins Harboring ID Regions >50 Residues |
||
|---|---|---|---|---|
| All Proteins | TTSS Effectors | All Proteins | TTSS Effectors | |
| P. syringae | 38.6 | 35.6 | ||
| phaseolicola 1448A | 26.1 | 42.0 | 10.1 | 52.4 |
| syringae B728a | 26.2 | 41.4 | 10.7 | 57.1 |
| tomato DC3000 | 26.4 | 39.7 | 10.2 | 34.4 |
| R. solanacearum | 42.6 | 69.6 | ||
| GMI1000 | 29.2 | 43.5 | 11.9 | 66.7 |
| Xanthomonas sp | 49.2 | 75.7 | ||
| X. campestris pv vesicatoria 85-10 | 29.6 | 50.9 | 13.5 | 69.6 |
| X. oryzae pv oryzae KACC10331 | 29.7 | 46.3 | 12.5 | 82.3 |
| X. campestris pv campestris ATCC 33913 | 29.1 | 44.6 | 13.3 | 68.9 |
| S. enterica | 22.1 | 18.5 | ||
| enterica ser. typhimurium LT2 | 23.0 | 21.5 | 7.0 | 19.2 |
Disorder parameters of representative effectors (see Supplemental Table 1 online) were calculated per species (highlighted in bold) and were compared to the values calculated for the proteomes from which the majority of the effectors were extracted. For completeness, effectors belonging to protein families absent in these strains were extracted from closely related strains (see Supplemental Table 1 online). Proteomes of P. syringae pv phaseolicola (strain 1448A; 5170 proteins), P. syringae pv syringae (strain B728a; 5088 proteins), P. syringae pv tomato (strain DC3000; 5618 proteins), R. solanacearum (strain GMI1000; 5108 proteins), X. campestris pv vesicatoria (strain 85-10; 4726 proteins), X. oryzae pv oryzae (strain KACC10331; 4065 proteins), X. campestris pv campestris (strain ATCC 33913; 4178 proteins), and S. typhimurium (strain LT2 ; 4555 proteins) were downloaded from the National Center for Biotechnology Information server (http://www.ncbi.nlm.nih.gov/genome/). Additionally, parameters were individually calculated for the different strains. Intrinsic disorder predictions were calculated with the PONDR VL-XT program (Romero et al., 2001). Here, scores below and above 0.5 indicate residues predicted to be ordered and disordered, respectively. The average percentage of sequence disordered was calculated as the mean value of the percentage of disordered residues (PONDR score > 0.5) per protein from all proteins. The percentage of long ID regions was calculated as the percentage of proteins harboring ID regions >50 residues.