Effective results for Methylobacterium populi BJ001 (eggnog40)
Summary
Number of putative secreted proteins: 210
- Predicted by T4SEpre: 90
- Predicted by EffectiveELD: 29 eukaryotic-like domains, contained in 141 proteins (0 high, 141 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)
Protein based results
Putative secreted proteins (weak evidence indicated by parentheses)
| Protein | EffectiveT3 | EffectiveCCBD | T4SEpre | EffectiveELD | Predotar |
|---|---|---|---|---|---|
| 441620.Mpop_4404 | (PF04577) | (mitochondrial) | |||
| 441620.Mpop_5311 | + | (mitochondrial) | |||
| 441620.Mpop_0966 | (PF03602) | (ER) | |||
| 441620.Mpop_3549 | + | (mitochondrial) | |||
| 441620.Mpop_2309 | + | mitochondrial | |||
| 441620.Mpop_1762 | + | ER | |||
| 441620.Mpop_1634 | + | mitochondrial; (mitochondrial) | |||
| 441620.Mpop_5416 | (PF08447) | ER | |||
| 441620.Mpop_0548 | + | ER | |||
| 441620.Mpop_0235 | + | ER | |||
| 441620.Mpop_1853 | + | mitochondrial | |||
| 441620.Mpop_0680 | (PF06912) | (ER) | |||
| 441620.Mpop_0684 | (PF02655) | (mitochondrial) | |||
| 441620.Mpop_5356 | (PF03209) | ER | |||
| 441620.Mpop_4320 | (PF03602) | (mitochondrial) | |||
| 441620.Mpop_2340 | (PF08447) | mitochondrial; (mitochondrial) | |||
| 441620.Mpop_1984 | (PF08447) | ER | |||
| 441620.Mpop_0589 | (PF03022) | mitochondrial | |||
| 441620.Mpop_5366 | (PF03209) | ER | |||
| 441620.Mpop_3352 | (PF11911) | ER | |||
| 441620.Mpop_2532 | (PF00829) | mitochondrial; (mitochondrial) | |||
| 441620.Mpop_0864 | + | mitochondrial | |||
| 441620.Mpop_2240 | + | ER | |||
| 441620.Mpop_3795 | (PF08447) | (mitochondrial); plastid | |||
| 441620.Mpop_1993 | (PF08447) | ER | |||
| 441620.Mpop_5378 | + | (mitochondrial); mitochondrial | |||
| 441620.Mpop_3941 | + | ER | |||
| 441620.Mpop_2168 | + | ER | |||
| 441620.Mpop_3439 | + | ER | |||
| 441620.Mpop_1279 | (PF13641) | (ER) | |||
| 441620.Mpop_0273 | (PF13641) | ER | |||
| 441620.Mpop_3630 | (PF13641) | ER | |||
| 441620.Mpop_0819 | + | ER | |||
| 441620.Mpop_0037 | + | ER | |||
| 441620.Mpop_0031 | + | ER | |||
| 441620.Mpop_5373 | + | (mitochondrial) | |||
| 441620.Mpop_2047 | + | (mitochondrial) | |||
| 441620.Mpop_0285 | (PF13641) | (mitochondrial); plastid | |||
| 441620.Mpop_1934 | + | ER | |||
| 441620.Mpop_4294 | + | (mitochondrial) | |||
| 441620.Mpop_3279 | (PF03022) | ER | |||
| 441620.Mpop_5047 | + | ER | |||
| 441620.Mpop_3269 | (PF13427) | (mitochondrial) | |||
| 441620.Mpop_1132 | (PF10908) | ER | |||
| 441620.Mpop_0514 | (PF08447) | (mitochondrial) | |||
| 441620.Mpop_0556 | + | (mitochondrial) | |||
| 441620.Mpop_2169 | + | ER | |||
| 441620.Mpop_3372 | + | (ER); (mitochondrial) | |||
| 441620.Mpop_0420 | + | ER; (ER) | |||
| 441620.Mpop_1035 | (PF03022) | ER | |||
| 441620.Mpop_1212 | + | mitochondrial | |||
| 441620.Mpop_0769 | (PF13641) | (mitochondrial) | |||
| 441620.Mpop_5272 | + | ER | |||
| 441620.Mpop_3209 | (PF01774) | mitochondrial; (mitochondrial) | |||
| 441620.Mpop_3203 | (PF01730) | ER | |||
| 441620.Mpop_5071 | (PF00011) | (mitochondrial) | |||
| 441620.Mpop_0149 | (PF08447) | (plastid) | |||
| 441620.Mpop_0146 | (PF08447) | (plastid) | |||
| 441620.Mpop_4205 | (PF03022) | (plastid) | |||
| 441620.Mpop_1896 | + | (mitochondrial) | |||
| 441620.Mpop_1438 | + | (mitochondrial) | |||
| 441620.Mpop_0433 | (PF00011) | (mitochondrial) | |||
| 441620.Mpop_0434 | + | (plastid) | |||
| 441620.Mpop_4108 | (PF08447) | (mitochondrial) | |||
| 441620.Mpop_3725 | (PF00011) | (mitochondrial) | |||
| 441620.Mpop_0642 | + | (PF11338) | |||
| 441620.Mpop_3382 | + | (plastid) | |||
| 441620.Mpop_1728 | (PF08447) | (ER) | |||
| 441620.Mpop_5109 | (PF08447) | (ER) | |||
| 441620.Mpop_3679 | (PF00011) | (mitochondrial) | |||
| 441620.Mpop_1316 | + | (plastid) | |||
| 441620.Mpop_2553 | (PF13427) | (ER) | |||
| 441620.Mpop_4651 | + | (mitochondrial) | |||
| 441620.Mpop_0578 | + | ||||
| 441620.Mpop_1684 | (PF11911) | ||||
| 441620.Mpop_0157 | (PF00872) | ||||
| 441620.Mpop_0150 | (PF08447) | ||||
| 441620.Mpop_5268 | (PF05532) | ||||
| 441620.Mpop_5312 | + | ||||
| 441620.Mpop_4226 | (PF00872) | ||||
| 441620.Mpop_2834 | (PF14701) | ||||
| 441620.Mpop_3241 | + | ||||
| 441620.Mpop_0944 | (PF00872) | ||||
| 441620.Mpop_0892 | + | ||||
| 441620.Mpop_4986 | + | ||||
| 441620.Mpop_0564 | (PF13641) | ||||
| 441620.Mpop_0144 | (PF08447) | ||||
| 441620.Mpop_0094 | (PF08447) | ||||
| 441620.Mpop_0098 | (PF08447) | ||||
| 441620.Mpop_3316 | + | ||||
| 441620.Mpop_2974 | (PF13632) | ||||
| 441620.Mpop_5418 | (PF08447) | ||||
| 441620.Mpop_2379 | (PF08892) | ||||
| 441620.Mpop_0511 | + | ||||
| 441620.Mpop_1777 | + | ||||
| 441620.Mpop_1173 | (PF13641) | ||||
| 441620.Mpop_0311 | + | ||||
| 441620.Mpop_0135 | (PF06745) | ||||
| 441620.Mpop_3966 | (PF00872) | ||||
| 441620.Mpop_3962 | (PF13632) | ||||
| 441620.Mpop_2818 | + | ||||
| 441620.Mpop_2784 | + | ||||
| 441620.Mpop_2786 | + | ||||
| 441620.Mpop_1860 | + | ||||
| 441620.Mpop_1142 | (PF10908) | ||||
| 441620.Mpop_0308 | (PF02705) | ||||
| 441620.Mpop_4321 | + | ||||
| 441620.Mpop_3791 | (PF08447) | ||||
| 441620.Mpop_3790 | + | ||||
| 441620.Mpop_4100 | (PF03988) | ||||
| 441620.Mpop_4102 | (PF03988) | ||||
| 441620.Mpop_4105 | (PF08447) | ||||
| 441620.Mpop_2170 | + | ||||
| 441620.Mpop_3779 | (PF00872) | ||||
| 441620.Mpop_2350 | (PF04577) | ||||
| 441620.Mpop_2423 | (PF05532) | ||||
| 441620.Mpop_4922 | (PF00829) | ||||
| 441620.Mpop_4591 | (PF06745) | ||||
| 441620.Mpop_5357 | (PF03602) | ||||
| 441620.Mpop_3160 | + | ||||
| 441620.Mpop_0851 | (PF08447) | ||||
| 441620.Mpop_2239 | (PF02705) | ||||
| 441620.Mpop_0540 | + | ||||
| 441620.Mpop_1575 | + | ||||
| 441620.Mpop_4776 | (PF08447) | ||||
| 441620.Mpop_4777 | (PF13641) | ||||
| 441620.Mpop_3753 | (PF00011) | ||||
| 441620.Mpop_3594 | (PF08447) | ||||
| 441620.Mpop_3796 | (PF11338) | ||||
| 441620.Mpop_1449 | (PF08447) | ||||
| 441620.Mpop_0266 | (PF00872) | ||||
| 441620.Mpop_4103 | (PF03988) | ||||
| 441620.Mpop_1840 | (PF13641) | ||||
| 441620.Mpop_0710 | (PF12513) | ||||
| 441620.Mpop_0870 | + | ||||
| 441620.Mpop_3724 | (PF00011) | ||||
| 441620.Mpop_1052 | (PF05532) | ||||
| 441620.Mpop_1053 | (PF05532) | ||||
| 441620.Mpop_1055 | (PF05532) | ||||
| 441620.Mpop_1616 | (PF00011) | ||||
| 441620.Mpop_2639 | + | ||||
| 441620.Mpop_1297 | (PF08447) | ||||
| 441620.Mpop_4368 | (PF08447) | ||||
| 441620.Mpop_1781 | (PF02655) | ||||
| 441620.Mpop_0704 | (PF08447) | ||||
| 441620.Mpop_4031 | (PF00872) | ||||
| 441620.Mpop_0801 | (PF08447) | ||||
| 441620.Mpop_2394 | (PF00872) | ||||
| 441620.Mpop_3420 | (PF13641) | ||||
| 441620.Mpop_3429 | (PF06912) | ||||
| 441620.Mpop_0029 | + | ||||
| 441620.Mpop_5399 | (PF08447) | ||||
| 441620.Mpop_2096 | (PF05532) | ||||
| 441620.Mpop_4734 | (PF08447) | ||||
| 441620.Mpop_1492 | (PF04577) | ||||
| 441620.Mpop_0036 | + | ||||
| 441620.Mpop_0039 | (PF06745) | ||||
| 441620.Mpop_0038 | (PF08447) | ||||
| 441620.Mpop_5120 | (PF01774) | ||||
| 441620.Mpop_5376 | + | ||||
| 441620.Mpop_3714 | (PF00872) | ||||
| 441620.Mpop_2916 | (PF06912) | ||||
| 441620.Mpop_3849 | + | ||||
| 441620.Mpop_4830 | (PF04577) | ||||
| 441620.Mpop_4618 | + | ||||
| 441620.Mpop_3892 | (PF08447) | ||||
| 441620.Mpop_3092 | + | ||||
| 441620.Mpop_2702 | + | ||||
| 441620.Mpop_4267 | (PF12200) | ||||
| 441620.Mpop_4069 | (PF00872) | ||||
| 441620.Mpop_2290 | (PF06912) | ||||
| 441620.Mpop_3500 | (PF08447) | ||||
| 441620.Mpop_3501 | (PF13641) | ||||
| 441620.Mpop_3502 | (PF13632) | ||||
| 441620.Mpop_2055 | (PF08447) | ||||
| 441620.Mpop_2952 | + | ||||
| 441620.Mpop_4182 | (PF00872) | ||||
| 441620.Mpop_3683 | (PF04800) | ||||
| 441620.Mpop_5067 | (PF00872) | ||||
| 441620.Mpop_3882 | (PF00011) | ||||
| 441620.Mpop_4078 | (PF06912) | ||||
| 441620.Mpop_4977 | + | ||||
| 441620.Mpop_2336 | + | ||||
| 441620.Mpop_4982 | (PF01442) | ||||
| 441620.Mpop_2848 | + | ||||
| 441620.Mpop_1138 | (PF01774) | ||||
| 441620.Mpop_1131 | (PF08447) | ||||
| 441620.Mpop_1130 | (PF08447) | ||||
| 441620.Mpop_1643 | (PF02705) | ||||
| 441620.Mpop_1134 | (PF01730) | ||||
| 441620.Mpop_5021 | (PF08447) | ||||
| 441620.Mpop_0192 | + | ||||
| 441620.Mpop_5118 | (PF01730) | ||||
| 441620.Mpop_0172 | (PF08447) | ||||
| 441620.Mpop_0179 | (PF02705) | ||||
| 441620.Mpop_3857 | (PF02655) | ||||
| 441620.Mpop_0134 | (PF08447) | ||||
| 441620.Mpop_0983 | (PF10013) | not used | |||
| 441620.Mpop_5055 | (PF08447) | ||||
| 441620.Mpop_0343 | (PF00872) | ||||
| 441620.Mpop_0507 | (PF08447) | ||||
| 441620.Mpop_0508 | (PF08447) | ||||
| 441620.Mpop_0164 | (PF08892) | ||||
| 441620.Mpop_0169 | (PF12200) | ||||
| 441620.Mpop_4250 | (PF04577) | ||||
| 441620.Mpop_3207 | + | ||||
| 441620.Mpop_1619 | + | ||||
| 441620.Mpop_3331 | (PF04800) | ||||
| 441620.Mpop_3680 | (PF00011) | ||||
| 441620.Mpop_3537 | (PF13641) |
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 = 0.5 (5/10 KEGG proteins)
- Functional Type VI secretion system: NO (FDR = 7.7 %)
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 = 0.5 (5/10 KEGG proteins)
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