Effective results for Methylobacterium radiotolerans JCM 2831 (eggnog40)
Summary
Number of putative secreted proteins: 168
- Predicted by T4SEpre: 58
- Predicted by EffectiveELD: 25 eukaryotic-like domains, contained in 118 proteins (1 high, 117 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 |
|---|---|---|---|---|---|
| 426355.Mrad2831_1269 | + | (PF13188) | mitochondrial; (mitochondrial) | ||
| 426355.Mrad2831_4680 | + | (mitochondrial) | |||
| 426355.Mrad2831_0016 | (PF13524) | ER | |||
| 426355.Mrad2831_1627 | (PF13632) | (ER) | |||
| 426355.Mrad2831_2560 | + | ER | |||
| 426355.Mrad2831_5542 | + | mitochondrial | |||
| 426355.Mrad2831_0094 | + | ER | |||
| 426355.Mrad2831_1460 | + | ER | |||
| 426355.Mrad2831_5760 | (PF11911) | ER | |||
| 426355.Mrad2831_3342 | + | ER | |||
| 426355.Mrad2831_4335 | + | ER | |||
| 426355.Mrad2831_5625 | (PF02911) | ER | |||
| 426355.Mrad2831_0716 | + | (ER) | |||
| 426355.Mrad2831_4471 | + | mitochondrial | |||
| 426355.Mrad2831_0275 | (PF03552) | ER | |||
| 426355.Mrad2831_4574 | + | ER | |||
| 426355.Mrad2831_4799 | (PF03552) | (mitochondrial) | |||
| 426355.Mrad2831_1316 | (PF13524) | (ER) | |||
| 426355.Mrad2831_4555 | + | ER | |||
| 426355.Mrad2831_0218 | + | (mitochondrial) | |||
| 426355.Mrad2831_1578 | (PF13632) | (mitochondrial); (plastid) | |||
| 426355.Mrad2831_5267 | (PF03404) | ER | |||
| 426355.Mrad2831_5264 | (PF03404) | mitochondrial | |||
| 426355.Mrad2831_0604 | + | (mitochondrial) | |||
| 426355.Mrad2831_2763 | + | ER | |||
| 426355.Mrad2831_3718 | (PF08447) | ER | |||
| 426355.Mrad2831_1843 | (PF03209) | ER | |||
| 426355.Mrad2831_1590 | (PF08447) | ER | |||
| 426355.Mrad2831_1860 | (PF07798) | (mitochondrial) | |||
| 426355.Mrad2831_2786 | (PF08447) | ER | |||
| 426355.Mrad2831_1800 | + | ER | |||
| 426355.Mrad2831_1747 | (PF13188) | ER | |||
| 426355.Mrad2831_3588 | (PF13188) | ER | |||
| 426355.Mrad2831_0882 | (PF06764) | ER | |||
| 426355.Mrad2831_2672 | (PF08447) | mitochondrial | |||
| 426355.Mrad2831_1096 | + | ER | |||
| 426355.Mrad2831_5531 | (PF08447) | (ER) | |||
| 426355.Mrad2831_4802 | (PF08447) (PF13188) | ||||
| 426355.Mrad2831_0537 | (PF08447) (PF13188) | ||||
| 426355.Mrad2831_5234 | (PF08447) (PF13188) | ||||
| 426355.Mrad2831_1858 | (PF01679) | ER; not used | |||
| 426355.Mrad2831_4148 | + | (mitochondrial) | |||
| 426355.Mrad2831_1794 | (PF09130) | plastid | |||
| 426355.Mrad2831_1649 | (PF10908) | plastid | |||
| 426355.Mrad2831_4432 | (PF08447) (PF13188) | ||||
| 426355.Mrad2831_1169 | PF04572 | (plastid) | |||
| 426355.Mrad2831_0364 | + | (mitochondrial) | |||
| 426355.Mrad2831_3147 | (PF02911) | (mitochondrial) | |||
| 426355.Mrad2831_4189 | (PF01679) | ER; not used | |||
| 426355.Mrad2831_1317 | (PF13524) | (mitochondrial) | |||
| 426355.Mrad2831_0544 | + | (mitochondrial) | |||
| 426355.Mrad2831_5438 | (PF04800) | (mitochondrial) | |||
| 426355.Mrad2831_1767 | (PF08447) (PF13188) | ||||
| 426355.Mrad2831_1318 | (PF13524) | mitochondrial | |||
| 426355.Mrad2831_2073 | + | ||||
| 426355.Mrad2831_1666 | (PF08447) | ||||
| 426355.Mrad2831_0204 | + | ||||
| 426355.Mrad2831_3274 | (PF08447) | ||||
| 426355.Mrad2831_3272 | (PF08447) | ||||
| 426355.Mrad2831_1503 | (PF08447) | ||||
| 426355.Mrad2831_5557 | + | ||||
| 426355.Mrad2831_3481 | (PF05532) | ||||
| 426355.Mrad2831_4215 | (PF03404) | ||||
| 426355.Mrad2831_0017 | (PF02911) | ||||
| 426355.Mrad2831_0570 | + | ||||
| 426355.Mrad2831_2159 | (PF08447) | ||||
| 426355.Mrad2831_0385 | (PF08447) | ||||
| 426355.Mrad2831_0389 | (PF08447) | ||||
| 426355.Mrad2831_4495 | (PF08447) | ||||
| 426355.Mrad2831_4390 | (PF08447) | ||||
| 426355.Mrad2831_2542 | (PF08447) | ||||
| 426355.Mrad2831_4253 | (PF08447) | ||||
| 426355.Mrad2831_1018 | (PF08447) | ||||
| 426355.Mrad2831_5228 | (PF08447) | ||||
| 426355.Mrad2831_1830 | (PF08892) | ||||
| 426355.Mrad2831_4352 | (PF13188) | ||||
| 426355.Mrad2831_3395 | + | ||||
| 426355.Mrad2831_0071 | (PF05532) | ||||
| 426355.Mrad2831_3186 | + | ||||
| 426355.Mrad2831_1851 | (PF13188) | ||||
| 426355.Mrad2831_1853 | (PF03209) | ||||
| 426355.Mrad2831_2833 | (PF08447) | ||||
| 426355.Mrad2831_2790 | (PF02911) | ||||
| 426355.Mrad2831_3683 | (PF08447) | ||||
| 426355.Mrad2831_3535 | (PF08447) | ||||
| 426355.Mrad2831_0132 | (PF08447) | ||||
| 426355.Mrad2831_5765 | + | ||||
| 426355.Mrad2831_3331 | (PF08447) | ||||
| 426355.Mrad2831_0751 | (PF05491) | ||||
| 426355.Mrad2831_2456 | + | ||||
| 426355.Mrad2831_4436 | (PF05491) | ||||
| 426355.Mrad2831_2877 | + | ||||
| 426355.Mrad2831_3317 | (PF03069) | ||||
| 426355.Mrad2831_0347 | (PF10908) | ||||
| 426355.Mrad2831_4456 | (PF05532) | ||||
| 426355.Mrad2831_4455 | (PF05532) | ||||
| 426355.Mrad2831_4458 | (PF05532) | ||||
| 426355.Mrad2831_2229 | (PF13188) | ||||
| 426355.Mrad2831_5194 | + | ||||
| 426355.Mrad2831_5440 | + | ||||
| 426355.Mrad2831_3953 | + | ||||
| 426355.Mrad2831_4414 | (PF12513) | ||||
| 426355.Mrad2831_3974 | (PF08447) | ||||
| 426355.Mrad2831_2598 | (PF08447) | ||||
| 426355.Mrad2831_4530 | (PF07798) | ||||
| 426355.Mrad2831_0198 | (PF08447) | ||||
| 426355.Mrad2831_2369 | (PF08447) | ||||
| 426355.Mrad2831_2366 | + | ||||
| 426355.Mrad2831_2365 | + | ||||
| 426355.Mrad2831_0279 | (PF05532) | ||||
| 426355.Mrad2831_5649 | (PF13188) | ||||
| 426355.Mrad2831_3990 | (PF00102) | ||||
| 426355.Mrad2831_4289 | (PF11911) | ||||
| 426355.Mrad2831_2325 | (PF08447) | ||||
| 426355.Mrad2831_4413 | (PF03069) | ||||
| 426355.Mrad2831_5307 | + | ||||
| 426355.Mrad2831_0237 | (PF13524) | ||||
| 426355.Mrad2831_0236 | (PF13524) | ||||
| 426355.Mrad2831_3021 | (PF08447) | ||||
| 426355.Mrad2831_0213 | (PF08447) | ||||
| 426355.Mrad2831_5651 | (PF05532) | ||||
| 426355.Mrad2831_1631 | (PF13188) | ||||
| 426355.Mrad2831_4267 | (PF08447) | ||||
| 426355.Mrad2831_4269 | + | ||||
| 426355.Mrad2831_3065 | (PF06764) | ||||
| 426355.Mrad2831_0399 | (PF08447) | ||||
| 426355.Mrad2831_5506 | (PF03069) | ||||
| 426355.Mrad2831_3048 | (PF08447) | ||||
| 426355.Mrad2831_3041 | (PF08447) | ||||
| 426355.Mrad2831_4037 | + | ||||
| 426355.Mrad2831_2578 | (PF08447) | ||||
| 426355.Mrad2831_1003 | + | ||||
| 426355.Mrad2831_0066 | + | ||||
| 426355.Mrad2831_0064 | + | ||||
| 426355.Mrad2831_2744 | + | ||||
| 426355.Mrad2831_5224 | (PF08447) | ||||
| 426355.Mrad2831_4171 | (PF08447) | ||||
| 426355.Mrad2831_1847 | + | ||||
| 426355.Mrad2831_1599 | (PF14701) | ||||
| 426355.Mrad2831_0646 | + | ||||
| 426355.Mrad2831_0878 | + | ||||
| 426355.Mrad2831_3047 | (PF08447) | ||||
| 426355.Mrad2831_4958 | (PF08447) | ||||
| 426355.Mrad2831_4139 | (PF09130) | ||||
| 426355.Mrad2831_3902 | (PF13632) | ||||
| 426355.Mrad2831_2901 | + | ||||
| 426355.Mrad2831_4115 | (PF04800) | ||||
| 426355.Mrad2831_4111 | + | ||||
| 426355.Mrad2831_3466 | (PF10013) | not used | |||
| 426355.Mrad2831_5459 | + | ||||
| 426355.Mrad2831_2987 | (PF13632) | ||||
| 426355.Mrad2831_4911 | (PF08892) | ||||
| 426355.Mrad2831_4387 | (PF13188) | ||||
| 426355.Mrad2831_4460 | (PF13188) | ||||
| 426355.Mrad2831_1761 | (PF08447) | ||||
| 426355.Mrad2831_0497 | (PF03069) | ||||
| 426355.Mrad2831_5280 | (PF03404) | ||||
| 426355.Mrad2831_3428 | + | ||||
| 426355.Mrad2831_1948 | (PF01442) | ||||
| 426355.Mrad2831_5653 | (PF05532) | ||||
| 426355.Mrad2831_4521 | + | ||||
| 426355.Mrad2831_3211 | (PF08447) | ||||
| 426355.Mrad2831_2358 | (PF08447) | ||||
| 426355.Mrad2831_4193 | (PF08447) | ||||
| 426355.Mrad2831_3239 | + | ||||
| 426355.Mrad2831_4235 | (PF08447) | ||||
| 426355.Mrad2831_5599 | (PF13188) | ||||
| 426355.Mrad2831_0418 | + |
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: 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 = 0.0 (0/10 KEGG proteins)
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