Effective results for Methylosinus trichosporium OB3b (eggnog40)
Summary
Number of putative secreted proteins: 157
- Predicted by T4SEpre: 116
- Predicted by EffectiveELD: 27 eukaryotic-like domains, contained in 63 proteins (7 high, 56 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 |
|---|---|---|---|---|---|
| 595536.MettrDRAFT_0819 | (PF13579) | mitochondrial; (mitochondrial) | |||
| 595536.MettrDRAFT_1194 | (PF13579) | (mitochondrial) | |||
| 595536.MettrDRAFT_3570 | (PF08242) | ER; (ER) | |||
| 595536.MettrDRAFT_2504 | + | (ER) | |||
| 595536.MettrDRAFT_1403 | + | mitochondrial | |||
| 595536.MettrDRAFT_0591 | + | mitochondrial; (mitochondrial) | |||
| 595536.MettrDRAFT_3956 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_0617 | + | ER | |||
| 595536.MettrDRAFT_3885 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_3767 | + | mitochondrial | |||
| 595536.MettrDRAFT_0933 | (PF05023) | ER | |||
| 595536.MettrDRAFT_1376 | + | ER | |||
| 595536.MettrDRAFT_1377 | + | ER | |||
| 595536.MettrDRAFT_1577 | (PF13540) | ER | |||
| 595536.MettrDRAFT_0895 | + | ER | |||
| 595536.MettrDRAFT_4382 | + | mitochondrial; (mitochondrial) | |||
| 595536.MettrDRAFT_0165 | + | (ER) | |||
| 595536.MettrDRAFT_0082 | + | ER | |||
| 595536.MettrDRAFT_3609 | + | mitochondrial | |||
| 595536.MettrDRAFT_1632 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_1585 | (PF13540) | (ER); plastid | |||
| 595536.MettrDRAFT_1581 | (PF13540) | ER | |||
| 595536.MettrDRAFT_1580 | (PF13540) | ER | |||
| 595536.MettrDRAFT_1583 | (PF13540) | ER | |||
| 595536.MettrDRAFT_1834 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_0573 | (PF13540) | ER | |||
| 595536.MettrDRAFT_1338 | + | mitochondrial | |||
| 595536.MettrDRAFT_2131 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_3067 | + | ER | |||
| 595536.MettrDRAFT_4276 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_0505 | + | mitochondrial; (mitochondrial) | |||
| 595536.MettrDRAFT_0325 | (PF06426) | mitochondrial; (mitochondrial) | |||
| 595536.MettrDRAFT_0210 | (PF04862) | ER | |||
| 595536.MettrDRAFT_0036 | + | ER | |||
| 595536.MettrDRAFT_3679 | + | ER | |||
| 595536.MettrDRAFT_3305 | (PF01847) | ER | |||
| 595536.MettrDRAFT_1864 | + | ER | |||
| 595536.MettrDRAFT_2066 | + | ER | |||
| 595536.MettrDRAFT_2279 | (PF05185) | mitochondrial | |||
| 595536.MettrDRAFT_2884 | (PF13844) | (mitochondrial) | |||
| 595536.MettrDRAFT_2795 | + | (ER); ER | |||
| 595536.MettrDRAFT_1200 | + | ER | |||
| 595536.MettrDRAFT_0817 | (PF13579) | (mitochondrial) | |||
| 595536.MettrDRAFT_1188 | (PF13579) | (plastid) | |||
| 595536.MettrDRAFT_2346 | (PF13872) (PF13871) | ||||
| 595536.MettrDRAFT_3810 | + | (PF10685) | |||
| 595536.MettrDRAFT_1559 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_2255 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_2382 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_4282 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_4426 | PF00292 | (mitochondrial) | |||
| 595536.MettrDRAFT_2140 | (PF13872) (PF13871) | ||||
| 595536.MettrDRAFT_0395 | + | (plastid) | |||
| 595536.MettrDRAFT_1746 | + | (mitochondrial) | |||
| 595536.MettrDRAFT_2735 | (PF08242) | (mitochondrial) | |||
| 595536.MettrDRAFT_3742 | + | plastid | |||
| 595536.MettrDRAFT_3984 | + | (ER) | |||
| 595536.MettrDRAFT_2653 | (PF05063) | (plastid) | |||
| 595536.MettrDRAFT_0821 | (PF13579) | (plastid) | |||
| 595536.MettrDRAFT_0813 | (PF03945) | ||||
| 595536.MettrDRAFT_4017 | + | ||||
| 595536.MettrDRAFT_3136 | + | ||||
| 595536.MettrDRAFT_4166 | + | ||||
| 595536.MettrDRAFT_1675 | + | ||||
| 595536.MettrDRAFT_2527 | (PF13632) | ||||
| 595536.MettrDRAFT_3124 | + | ||||
| 595536.MettrDRAFT_4005 | + | ||||
| 595536.MettrDRAFT_3901 | + | ||||
| 595536.MettrDRAFT_4172 | + | ||||
| 595536.MettrDRAFT_2405 | (PF10685) | ||||
| 595536.MettrDRAFT_2533 | + | not used | |||
| 595536.MettrDRAFT_1533 | PF07798 | ||||
| 595536.MettrDRAFT_1534 | PF07798 | ||||
| 595536.MettrDRAFT_2220 | + | ||||
| 595536.MettrDRAFT_3547 | + | ||||
| 595536.MettrDRAFT_0583 | + | ||||
| 595536.MettrDRAFT_0612 | + | ||||
| 595536.MettrDRAFT_2502 | (PF06080) | ||||
| 595536.MettrDRAFT_1986 | + | ||||
| 595536.MettrDRAFT_3213 | + | ||||
| 595536.MettrDRAFT_3567 | (PF08242) | ||||
| 595536.MettrDRAFT_3568 | (PF08242) | ||||
| 595536.MettrDRAFT_0590 | + | ||||
| 595536.MettrDRAFT_0130 | + | ||||
| 595536.MettrDRAFT_1088 | PF07798 | ||||
| 595536.MettrDRAFT_2284 | (PF05704) | ||||
| 595536.MettrDRAFT_1883 | (PF13759) | ||||
| 595536.MettrDRAFT_1554 | + | ||||
| 595536.MettrDRAFT_0306 | + | ||||
| 595536.MettrDRAFT_3550 | + | ||||
| 595536.MettrDRAFT_1601 | + | ||||
| 595536.MettrDRAFT_1438 | + | ||||
| 595536.MettrDRAFT_2567 | + | ||||
| 595536.MettrDRAFT_1892 | (PF13759) | ||||
| 595536.MettrDRAFT_1891 | (PF13759) | ||||
| 595536.MettrDRAFT_0713 | (PF01442) | ||||
| 595536.MettrDRAFT_1572 | + | ||||
| 595536.MettrDRAFT_1578 | (PF13540) | ||||
| 595536.MettrDRAFT_3041 | + | ||||
| 595536.MettrDRAFT_3530 | (PF13844) | ||||
| 595536.MettrDRAFT_0948 | (PF13844) | ||||
| 595536.MettrDRAFT_0643 | + | ||||
| 595536.MettrDRAFT_3449 | + | ||||
| 595536.MettrDRAFT_0365 | (PF00847) | ||||
| 595536.MettrDRAFT_2493 | + | not used | |||
| 595536.MettrDRAFT_4394 | (PF13844) | ||||
| 595536.MettrDRAFT_0375 | (PF04218) | ||||
| 595536.MettrDRAFT_3735 | + | ||||
| 595536.MettrDRAFT_2484 | PF08557 | ||||
| 595536.MettrDRAFT_1828 | + | ||||
| 595536.MettrDRAFT_2734 | (PF08242) | ||||
| 595536.MettrDRAFT_3601 | + | ||||
| 595536.MettrDRAFT_3193 | + | ||||
| 595536.MettrDRAFT_3281 | + | ||||
| 595536.MettrDRAFT_4252 | + | ||||
| 595536.MettrDRAFT_3991 | (PF13579) | ||||
| 595536.MettrDRAFT_3462 | + | ||||
| 595536.MettrDRAFT_1736 | + | ||||
| 595536.MettrDRAFT_2451 | + | ||||
| 595536.MettrDRAFT_2193 | + | ||||
| 595536.MettrDRAFT_3292 | + | ||||
| 595536.MettrDRAFT_3058 | + | ||||
| 595536.MettrDRAFT_0978 | + | ||||
| 595536.MettrDRAFT_4245 | (PF13844) | ||||
| 595536.MettrDRAFT_4088 | + | not used | |||
| 595536.MettrDRAFT_3479 | + | ||||
| 595536.MettrDRAFT_0579 | (PF10685) | ||||
| 595536.MettrDRAFT_0751 | (PF06426) | ||||
| 595536.MettrDRAFT_2912 | (PF13632) | ||||
| 595536.MettrDRAFT_2045 | PF07798 | ||||
| 595536.MettrDRAFT_0690 | + | ||||
| 595536.MettrDRAFT_4182 | + | ||||
| 595536.MettrDRAFT_2245 | (PF13579) | ||||
| 595536.MettrDRAFT_1320 | (PF05063) | ||||
| 595536.MettrDRAFT_2457 | + | ||||
| 595536.MettrDRAFT_3203 | (PF13875) | ||||
| 595536.MettrDRAFT_0203 | + | ||||
| 595536.MettrDRAFT_1641 | PF07798 | ||||
| 595536.MettrDRAFT_1319 | + | ||||
| 595536.MettrDRAFT_3247 | + | ||||
| 595536.MettrDRAFT_1663 | + | ||||
| 595536.MettrDRAFT_0238 | (PF13632) | ||||
| 595536.MettrDRAFT_0015 | + | ||||
| 595536.MettrDRAFT_0653 | + | ||||
| 595536.MettrDRAFT_1656 | + | ||||
| 595536.MettrDRAFT_2475 | + | ||||
| 595536.MettrDRAFT_3784 | (PF13844) | ||||
| 595536.MettrDRAFT_0820 | (PF13579) | ||||
| 595536.MettrDRAFT_0797 | + | ||||
| 595536.MettrDRAFT_0798 | + | ||||
| 595536.MettrDRAFT_2617 | + | ||||
| 595536.MettrDRAFT_2460 | + | ||||
| 595536.MettrDRAFT_3521 | + | ||||
| 595536.MettrDRAFT_1845 | (PF06426) | ||||
| 595536.MettrDRAFT_3221 | (PF16158) | ||||
| 595536.MettrDRAFT_2081 | (PF06080) | ||||
| 595536.MettrDRAFT_4238 | (PF05189) |
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 = 1.2 (12/10 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 = 1.2 (12/10 KEGG proteins)
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