Skip to main content

Table 6 Predicted secreted proteins in rhizobia that have not been confirmed experimentally.

From: Computational prediction of type III secreted proteins from gram-negative bacteria

Gene ID Annotation Position of tts box Motif e-value SVM probability
blr1704 hypothetical protein -67 ~ -31 2.30E-06 0.92
bll1648 hypothetical protein -260 ~ -224 9.60E-03 0.88
blr1854 hypothetical protein -66 ~ -30 6.10E-07 0.86
mlr5875 hypothetical protein -157 ~ -121 1.00E-02 0.86
mlr6331 hypothetical protein -81 ~ -45 2.10E-03 0.69
Smed_1170 biotin-regulated protein -107 ~ -71 8.30E-03 0.68
blr5999 hypothetical protein -693 ~ -657 7.00E-03 0.67
bll1840 hypothetical protein -74 ~ -38 5.60E-05 0.64
Smed_5711 hypothetical protein -606 ~ -570 0.0047 0.55
bll1796 hypothetical protein -930 ~ -894 1.40E-06 0.54
bll1804 hypothetical protein -102 ~ -66 7.50E-10 0.51
bll8244 hypothetical protein -188 ~ -152 9.80E-06 0.51
bll1636 hypothetical protein -657 ~ -621 3.10E-03 0.50
Smed_4857 hypothetical protein -826 ~ -790 0.0068 0.49
Smed_1856 putative signal peptide protein -299 ~ -263 2.80E-03 0.48
Smed_4485 hypothetical protein -637 ~ -601 0.005 0.4
bll0275 hypothetical protein -395 ~ -361 8.50E-03 0.38
bsr1999 hypothetical protein -264 ~ -227 4.20E-04 0.37
mlr3881 hypothetical protein -483 ~ -447 9.80E-03 0.36
blr0325 hypothetical protein -490 ~ -454 5.40E-03 0.35
mll5027 hypothetical protein -377 ~ -340 9.20E-03 0.35
bll1848 hypothetical protein -300 ~ -264 9.00E-08 0.34
bll5481 hypothetical protein -128 ~ -92 6.50E-03 0.33
mlr0825 hypothetical protein -535 ~ -499 5.70E-03 0.32
bsr8005 hypothetical protein -89 ~ -53 5.60E-03 0.31
mlr1025 * -764 ~ -728 8.60E-04 0.29
mlr7808 hypothetical protein -906 ~ -869 6.70E-03 0.29
Smed_0887 hypothetical protein -585 ~ -549 5.50E-03 0.27
blr6167 hypothetical protein -250 ~ -214 9.50E-03 0.27
msl5783 hypothetical protein -710 ~ -673 8.40E-03 0.25
Smed_1171 peptidase M23B -993 ~ -957 8.30E-03 0.23
bll5622 hypothetical protein -152 ~ -116 9.50E-03 0.19
bll1877 hypothetical protein -101 ~ -65 1.80E-08 0.13
Smed_5269 hypothetical protein -610 ~ -574 0.00014 0.12
blr1869 hypothetical protein -147 ~ -111 3.50E-08 0.1
Smed_0286 hypothetical protein -133 ~ -97 1.50E-04 0.09
blr0354 hypothetical protein -482 ~ -446 5.80E-03 0.09
bll1810 hypothetical protein -246 ~ -210 1.90E-07 0.08
bll1798 hypothetical protein -90 ~ -54 1.40E-06 0.08
bll1797 hypothetical protein -533 ~ -497 1.40E-06 0.04
  1. Here, the position of the tts box in a promoter region is specified in terms of its distance from the respective start codon. The negative sign means that the promoter region is upstream of the start codon. The annotation * indicates a transcriptional regulatory protein that is also a nodulation competitiveness determinant. Genes that contain "bll" and "blr" in their IDs are from Bradyrhizobium japonicum USDA 110, genes that contain "mll" and "mlr" are from Mesorhizobium loti MAFF303099, and genes that contain "Smed" are from Sinorhizobium medicae WSM419.