Effective results for Xenorhabdus bovienii SS-2004 (eggnog40)
Summary
Number of putative secreted proteins: 297
- Predicted by T4SEpre: 117
- Predicted by EffectiveELD: 23 eukaryotic-like domains, contained in 203 proteins (148 high, 55 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): (Type IV), Type VI
Protein based results
Putative secreted proteins (weak evidence indicated by parentheses)
Protein | EffectiveT3 | EffectiveCCBD | T4SEpre | EffectiveELD | Predotar |
---|---|---|---|---|---|
406818.XBJ1_1251 | (PF03796) (PF00772) | ER; (ER) | |||
406818.XBJ1_1116 | PF13358 PF13592 | (mitochondrial) | |||
406818.XBJ1_0285 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3712 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3893 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_3892 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0768 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_3412 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1708 | PF03400 | (mitochondrial) | |||
406818.XBJ1_2602 | PF03400 | (mitochondrial) | |||
406818.XBJ1_2132 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3171 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3776 | (PF00275) | (ER) | |||
406818.XBJ1_3771 | PF03400 | (mitochondrial) | |||
406818.XBJ1_2145 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_1737 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_1734 | PF03400 | (mitochondrial) | |||
406818.XBJ1_2140 | + | mitochondrial | |||
406818.XBJ1_2143 | + | (mitochondrial); mitochondrial | |||
406818.XBJ1_4077 | + | (mitochondrial); mitochondrial | |||
406818.XBJ1_2386 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_2090 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3547 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3168 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_2969 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0236 | + | ER | |||
406818.XBJ1_2620 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_2622 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_2391 | PF03400 | (mitochondrial) | |||
406818.XBJ1_2081 | + | (ER) | |||
406818.XBJ1_2083 | PF03400 | (mitochondrial) | |||
406818.XBJ1_2579 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_2215 | + | ER | |||
406818.XBJ1_2574 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3112 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_0710 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0951 | + | (mitochondrial) | |||
406818.XBJ1_0827 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_3592 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0221 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_4120 | PF03400 | (mitochondrial) | |||
406818.XBJ1_2363 | + | ER | |||
406818.XBJ1_2767 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_3364 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3109 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3292 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0459 | (PF01609) | mitochondrial; (mitochondrial) | |||
406818.XBJ1_1983 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1985 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1853 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1279 | (PF14464) | (mitochondrial) | |||
406818.XBJ1_2171 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3989 | (PF04383) | ER; (ER) | |||
406818.XBJ1_3356 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1519 | (PF01609) | ER | |||
406818.XBJ1_0026 | + | ER | |||
406818.XBJ1_1466 | + | ER | |||
406818.XBJ1_0597 | + | (mitochondrial) | |||
406818.XBJ1_1867 | (PF01609) | (mitochondrial) | |||
406818.XBJ1_4039 | + | (mitochondrial) | |||
406818.XBJ1_3908 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0477 | + | ER | |||
406818.XBJ1_1874 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_1872 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1654 | + | (ER) | |||
406818.XBJ1_1099 | + | ER | |||
406818.XBJ1_1142 | + | ER | |||
406818.XBJ1_2753 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_2350 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_0912 | + | ER | |||
406818.XBJ1_2820 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0461 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1407 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1409 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0860 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0862 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1313 | + | (mitochondrial); (plastid) | |||
406818.XBJ1_2325 | + | ER | |||
406818.XBJ1_3921 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3813 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_3498 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_3496 | PF14564 | (mitochondrial) | |||
406818.XBJ1_3782 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0075 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_0096 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_3313 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3041 | + | ER | |||
406818.XBJ1_0066 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_2801 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_2804 | + | ER | |||
406818.XBJ1_3684 | + | ER | |||
406818.XBJ1_1428 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0882 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0240 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_1754 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1759 | (PF00275) | (ER) | |||
406818.XBJ1_1208 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_1114 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_2017 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_3273 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3057 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3692 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_1923 | + | ER | |||
406818.XBJ1_1432 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_1814 | + | ER | |||
406818.XBJ1_1321 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0228 | + | ER | |||
406818.XBJ1_2465 | + | ER | |||
406818.XBJ1_2003 | (PF04383) | ER; (ER) | |||
406818.XBJ1_0647 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0510 | + | ER | |||
406818.XBJ1_1774 | + | mitochondrial; (mitochondrial) | |||
406818.XBJ1_0749 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1583 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1765 | PF03400 | (mitochondrial) | |||
406818.XBJ1_0758 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_0753 | PF13551 PF13358 PF13592 | ||||
406818.XBJ1_3408 | PF03400 | (mitochondrial) | |||
406818.XBJ1_2661 | PF03400 | (mitochondrial) | |||
406818.XBJ1_3999 | + | ER | |||
406818.XBJ1_3405 | PF03400 | (mitochondrial) | |||
406818.XBJ1_1978 | (PF01609) | (ER) | |||
406818.XBJ1_1573 | PF12255 (PF12256) | ||||
406818.XBJ1_0760 | + | (mitochondrial) | |||
406818.XBJ1_2605 | (PF01609) | (ER) | |||
406818.XBJ1_1554 | (PF03796) (PF00772) | ||||
406818.XBJ1_3370 | (PF03796) (PF00772) | ||||
406818.XBJ1_1190 | (PF03796) (PF00772) | ||||
406818.XBJ1_3108 | + | (PF01609) | |||
406818.XBJ1_3913 | (PF03796) (PF00772) | ||||
406818.XBJ1_1885 | (PF01609) | (ER) | |||
406818.XBJ1_4219 | + | (mitochondrial) | |||
406818.XBJ1_3019 | (PF07678) | (mitochondrial) | |||
406818.XBJ1_1387 | (PF00959) | (ER) | |||
406818.XBJ1_3069 | (PF01609) | (mitochondrial) | |||
406818.XBJ1_0864 | PF03400 | (mitochondrial); not used | |||
406818.XBJ1_1790 | PF03400 | (plastid) | |||
406818.XBJ1_3326 | (PF01609) | (ER) | |||
406818.XBJ1_1934 | PF12255 (PF12256) | ||||
406818.XBJ1_2910 | (PF01609) | (ER) | |||
406818.XBJ1_2580 | (PF01609) | (ER) | |||
406818.XBJ1_3887 | PF13358 | (mitochondrial) | |||
406818.XBJ1_1572 | (PF03538) | ||||
406818.XBJ1_0179 | (PF01764) | ||||
406818.XBJ1_1480 | PF02371 | ||||
406818.XBJ1_1154 | PF02371 | ||||
406818.XBJ1_2182 | PF13551 | ||||
406818.XBJ1_1804 | + | ||||
406818.XBJ1_4299 | PF02371 | ||||
406818.XBJ1_3564 | PF02371 | ||||
406818.XBJ1_2057 | (PF14464) | ||||
406818.XBJ1_3419 | PF13358 | ||||
406818.XBJ1_0761 | + | ||||
406818.XBJ1_0816 | (PF00275) | ||||
406818.XBJ1_1963 | (PF01609) | ||||
406818.XBJ1_4285 | + | ||||
406818.XBJ1_4283 | + | ||||
406818.XBJ1_1150 | + | ||||
406818.XBJ1_2793 | + | ||||
406818.XBJ1_3948 | PF02371 | ||||
406818.XBJ1_2696 | + | ||||
406818.XBJ1_3179 | PF02371 | ||||
406818.XBJ1_0773 | PF13358 | ||||
406818.XBJ1_3778 | PF03400 | ||||
406818.XBJ1_3774 | (PF00275) | ||||
406818.XBJ1_3777 | PF03400 | ||||
406818.XBJ1_3603 | + | ||||
406818.XBJ1_1602 | + | ||||
406818.XBJ1_1044 | + | ||||
406818.XBJ1_2638 | + | ||||
406818.XBJ1_2632 | + | ||||
406818.XBJ1_2147 | (PF01609) | ||||
406818.XBJ1_3380 | + | ||||
406818.XBJ1_0707 | + | ||||
406818.XBJ1_0492 | PF03439 | ||||
406818.XBJ1_1610 | + | ||||
406818.XBJ1_4246 | PF02371 | ||||
406818.XBJ1_3978 | + | ||||
406818.XBJ1_3971 | + | ||||
406818.XBJ1_0715 | PF02371 | ||||
406818.XBJ1_0714 | PF02371 | ||||
406818.XBJ1_0957 | + | ||||
406818.XBJ1_3595 | PF03400 | ||||
406818.XBJ1_1994 | + | ||||
406818.XBJ1_1849 | (PF14464) | ||||
406818.XBJ1_4231 | + | ||||
406818.XBJ1_4125 | PF02371 | ||||
406818.XBJ1_4126 | PF02371 | ||||
406818.XBJ1_2163 | + | ||||
406818.XBJ1_2165 | (PF13603) | ||||
406818.XBJ1_2184 | PF13358 | ||||
406818.XBJ1_3566 | PF02371 | ||||
406818.XBJ1_0969 | + | ||||
406818.XBJ1_0030 | + | ||||
406818.XBJ1_0856 | + | ||||
406818.XBJ1_3587 | PF13358 | ||||
406818.XBJ1_1987 | + | ||||
406818.XBJ1_1292 | + | ||||
406818.XBJ1_1757 | (PF00275) | ||||
406818.XBJ1_3140 | + | ||||
406818.XBJ1_0327 | + | ||||
406818.XBJ1_2378 | + | ||||
406818.XBJ1_2377 | + | ||||
406818.XBJ1_2190 | PF03400 | ||||
406818.XBJ1_3355 | (PF01609) | ||||
406818.XBJ1_3139 | PF13358 | ||||
406818.XBJ1_0732 | + | ||||
406818.XBJ1_3002 | PF16485 | ||||
406818.XBJ1_3001 | PF16485 | ||||
406818.XBJ1_0023 | + | ||||
406818.XBJ1_1880 | (PF01609) | ||||
406818.XBJ1_1881 | PF03400 | ||||
406818.XBJ1_1889 | PF02371 | ||||
406818.XBJ1_0207 | + | ||||
406818.XBJ1_3836 | (PF00275) | ||||
406818.XBJ1_0907 | + | ||||
406818.XBJ1_1503 | (PF01764) | ||||
406818.XBJ1_1890 | PF02371 | ||||
406818.XBJ1_0278 | (PF00959) | ||||
406818.XBJ1_0149 | PF03400 | ||||
406818.XBJ1_0300 | PF03400 | ||||
406818.XBJ1_1258 | (PF00959) | ||||
406818.XBJ1_4373 | (PF05929) | ||||
406818.XBJ1_2683 | PF03400 | ||||
406818.XBJ1_2681 | PF03400 | ||||
406818.XBJ1_1545 | + | ||||
406818.XBJ1_3935 | (PF14464) | ||||
406818.XBJ1_2220 | PF02371 | ||||
406818.XBJ1_3806 | + | ||||
406818.XBJ1_4162 | + | ||||
406818.XBJ1_0919 | + | ||||
406818.XBJ1_3796 | + | ||||
406818.XBJ1_1404 | PF02371 | ||||
406818.XBJ1_1405 | PF02371 | ||||
406818.XBJ1_1311 | PF02371 | ||||
406818.XBJ1_1580 | PF13358 | ||||
406818.XBJ1_0268 | + | ||||
406818.XBJ1_1227 | (PF04383) | ||||
406818.XBJ1_4306 | PF03400 | ||||
406818.XBJ1_4300 | PF02371 | ||||
406818.XBJ1_1134 | PF03400 | ||||
406818.XBJ1_2038 | PF13894 | ||||
406818.XBJ1_2789 | (PF01609) | ||||
406818.XBJ1_3924 | + | ||||
406818.XBJ1_2818 | PF03400 | ||||
406818.XBJ1_1239 | (PF14464) | ||||
406818.XBJ1_1121 | + | ||||
406818.XBJ1_2799 | (PF00959) | ||||
406818.XBJ1_2027 | + | ||||
406818.XBJ1_2025 | + | ||||
406818.XBJ1_2242 | + | ||||
406818.XBJ1_3268 | + | ||||
406818.XBJ1_0663 | PF02371 | ||||
406818.XBJ1_0666 | (PF14464) | ||||
406818.XBJ1_2805 | (PF01609) | ||||
406818.XBJ1_1424 | (PF01609) | ||||
406818.XBJ1_1339 | (PF01609) | ||||
406818.XBJ1_1330 | PF02371 | ||||
406818.XBJ1_1202 | (PF00959) | ||||
406818.XBJ1_4095 | PF02371 | ||||
406818.XBJ1_4140 | PF03400 | not used | |||
406818.XBJ1_3873 | + | ||||
406818.XBJ1_0601 | + | ||||
406818.XBJ1_3055 | (PF01609) | ||||
406818.XBJ1_3056 | PF13358 | ||||
406818.XBJ1_1920 | + | ||||
406818.XBJ1_1192 | + | ||||
406818.XBJ1_1329 | PF02371 | ||||
406818.XBJ1_1749 | + | ||||
406818.XBJ1_4082 | PF03400 | ||||
406818.XBJ1_4157 | + | ||||
406818.XBJ1_4333 | + | ||||
406818.XBJ1_1211 | + | ||||
406818.XBJ1_4152 | + | ||||
406818.XBJ1_3206 | (PF13603) | ||||
406818.XBJ1_3194 | PF03400 | ||||
406818.XBJ1_3420 | + | ||||
406818.XBJ1_3422 | + | ||||
406818.XBJ1_1171 | + | ||||
406818.XBJ1_2582 | PF13358 | ||||
406818.XBJ1_3503 | (PF01764) | ||||
406818.XBJ1_0631 | PF02371 | ||||
406818.XBJ1_0632 | PF02371 | ||||
406818.XBJ1_3180 | PF02371 | ||||
406818.XBJ1_0569 | (PF03538) | ||||
406818.XBJ1_1761 | PF03400 | ||||
406818.XBJ1_1760 | PF03400 | ||||
406818.XBJ1_0161 | PF03400 | ||||
406818.XBJ1_0162 | + | ||||
406818.XBJ1_2648 | + | ||||
406818.XBJ1_2060 | PF02371 | ||||
406818.XBJ1_2467 | + | ||||
406818.XBJ1_0620 | PF02371 | ||||
406818.XBJ1_3085 | + | ||||
406818.XBJ1_0998 | (PF05929) | ||||
406818.XBJ1_3156 | + | ||||
406818.XBJ1_0751 | PF02371 |
Detailed merged results for each protein sequence
- Detailed merged results as table (merge_results.html)
- Detailed merged results as tab delimited file (merge_results.csv)
Individual results for each protein sequence
- T4SEpre bpbAac predictions (T4SEpre_bpbAac_FinalResult.csv)
- T4SEpre psAac predictions (T4SEpre_psAac_FinalResult.csv)
- EffectiveELD predictions (PROTEINS.ELD.TXT)
- Predotar predictions using animal/human model (Predotar_output_modelANIMAL.TXT)
- Predotar predictions using plant model (Predotar_output_modelPLANT.TXT)
Genome based results
Summary
- Gram negative: YES (FDR = 0.5 %)
- Functional Type III secretion system: NO (FDR = 12.5 %)
- Functional Type IV secretion system: YES (FDR = 7.2 %)
Estimated copy number = 0.0 (0/10 KEGG proteins)
- Functional Type VI secretion system: YES (FDR = 7.7 %)
Estimated copy number = 2.125 (17/8 KEGG proteins)
Individual results for each secretion system
- List of 100 most important COGs/NOGs for prediction of functional Type III secretion system (T3_top100_COGS.xls)
- List of 100 most important COGs/NOGs for prediction of functional Type IV secretion system (T4_top100_COGS.xls)
- List of 100 most important COGs/NOGs for prediction of functional Type VI secretion system (T6_top100_COGS.xls)
- List of COGs assigned to Type III secretion system in KEGG (T3SS_KEGG_cmp.xls)
- List of COGs assigned to Type IV secretion system in KEGG (T4SS_KEGG_cmp.xls)
- List of COGs assigned to Type VI secretion system in KEGG (T6SS_KEGG_cmp.xls)
Parameters:
==========================================================
EFFECTIVE_T3_OLD=selective
EFFECTIVE_T3_NEW=selective
PREDOTAR_ANIMAL_OR_PLANT=a
PROTEINS=INPUT PROTEINS
MODUS=genome
RUN_PREDOTAR=T
RUN_EFFECTIVE_T3=T
RUN_T4SEpre=0.5
RUN_EFFECTIVE_CCBD=T
RUN_EFFECTIVE_ELD=4
CheckM_COMPLETENESS=
RUN_EffectiveS346=T
GENOTYPE=COG Profile
EMAIL=
==========================================================
Estimated copy number = 0.0 (0/10 KEGG proteins)
Estimated copy number = 2.125 (17/8 KEGG proteins)