Effective results for Rhodopseudomonas palustris BisA53 (eggnog40)
Summary
Number of putative secreted proteins: 146
- Predicted by T4SEpre: 98
- Predicted by EffectiveELD: 20 eukaryotic-like domains, contained in 66 proteins (1 high, 65 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 |
|---|---|---|---|---|---|
| 316055.RPE_0122 | (PF00565) | ER | |||
| 316055.RPE_2170 | (PF13589) | (mitochondrial); mitochondrial | |||
| 316055.RPE_2778 | + | ER | |||
| 316055.RPE_1337 | (PF03209) | ER | |||
| 316055.RPE_2462 | + | mitochondrial | |||
| 316055.RPE_1322 | + | mitochondrial | |||
| 316055.RPE_3726 | + | (mitochondrial) | |||
| 316055.RPE_3610 | (PF00565) | ER | |||
| 316055.RPE_4808 | + | ER | |||
| 316055.RPE_1294 | (PF03209) | ER | |||
| 316055.RPE_0678 | (PF14295) | (ER) | |||
| 316055.RPE_0874 | + | ER | |||
| 316055.RPE_4560 | (PF13833) | ER | |||
| 316055.RPE_1862 | + | mitochondrial | |||
| 316055.RPE_2721 | + | mitochondrial | |||
| 316055.RPE_2351 | (PF08022) | ER | |||
| 316055.RPE_4825 | + | mitochondrial; plastid | |||
| 316055.RPE_0650 | (PF01541) | ER | |||
| 316055.RPE_1390 | + | ER | |||
| 316055.RPE_1662 | (PF05050) | (mitochondrial); mitochondrial | |||
| 316055.RPE_3061 | + | ER | |||
| 316055.RPE_1885 | + | ER | |||
| 316055.RPE_2459 | + | ER | |||
| 316055.RPE_3898 | (PF08022) | ER | |||
| 316055.RPE_3461 | + | ER | |||
| 316055.RPE_2596 | + | mitochondrial; (plastid) | |||
| 316055.RPE_4298 | + | ER | |||
| 316055.RPE_4076 | + | ER | |||
| 316055.RPE_1646 | (PF01541) | (ER) | |||
| 316055.RPE_4188 | (PF13833) | ER | |||
| 316055.RPE_1352 | (PF03209) | (mitochondrial); (plastid) | |||
| 316055.RPE_3189 | (PF00148) | (mitochondrial) | |||
| 316055.RPE_4242 | (PF05050) | mitochondrial | |||
| 316055.RPE_1698 | (PF01541) | (mitochondrial) | |||
| 316055.RPE_0508 | + | (mitochondrial) | |||
| 316055.RPE_2625 | (PF02931) | ER | |||
| 316055.RPE_4872 | + | (mitochondrial) | |||
| 316055.RPE_0083 | (PF00565) | ER | |||
| 316055.RPE_3346 | + | ER | |||
| 316055.RPE_4673 | + | ER | |||
| 316055.RPE_0139 | + | ER; (ER) | |||
| 316055.RPE_0898 | (PF00565) | ER; (ER) | |||
| 316055.RPE_3565 | + | mitochondrial | |||
| 316055.RPE_2210 | + | ER | |||
| 316055.RPE_4116 | + | (plastid) | |||
| 316055.RPE_3024 | + | (plastid) | |||
| 316055.RPE_2686 | (PF00016) (PF02788) | ||||
| 316055.RPE_1181 | + | (mitochondrial) | |||
| 316055.RPE_3238 | + | (plastid) | |||
| 316055.RPE_4150 | + | (plastid) | |||
| 316055.RPE_1046 | + | (mitochondrial) | |||
| 316055.RPE_0032 | (PF00565) | (mitochondrial) | |||
| 316055.RPE_2665 | + | (ER) | |||
| 316055.RPE_0631 | (PF08446) (PF00360) | ||||
| 316055.RPE_0632 | (PF08446) (PF00360) | ||||
| 316055.RPE_0525 | + | (ER) | |||
| 316055.RPE_1343 | (PF08446) (PF00360) | ||||
| 316055.RPE_0778 | + | plastid | |||
| 316055.RPE_1361 | (PF00016) (PF02788) | ||||
| 316055.RPE_2483 | + | (plastid) | |||
| 316055.RPE_2484 | (PF13589) | (mitochondrial) | |||
| 316055.RPE_1007 | (PF03098) | (plastid) | |||
| 316055.RPE_0422 | (PF00016) (PF02788) | ||||
| 316055.RPE_3783 | + | (mitochondrial) | |||
| 316055.RPE_1099 | (PF05050) | ||||
| 316055.RPE_1328 | (PF00148) | ||||
| 316055.RPE_1894 | (PF01541) | ||||
| 316055.RPE_2174 | (PF00303) | ||||
| 316055.RPE_3379 | + | ||||
| 316055.RPE_2354 | + | ||||
| 316055.RPE_4691 | + | ||||
| 316055.RPE_1084 | (PF00648) | ||||
| 316055.RPE_1420 | (PF13589) | ||||
| 316055.RPE_1329 | (PF00148) | ||||
| 316055.RPE_2169 | (PF13589) | ||||
| 316055.RPE_4771 | + | ||||
| 316055.RPE_1183 | + | ||||
| 316055.RPE_1187 | + | ||||
| 316055.RPE_1984 | + | ||||
| 316055.RPE_4904 | + | ||||
| 316055.RPE_4038 | + | ||||
| 316055.RPE_2524 | (PF05050) | ||||
| 316055.RPE_3470 | + | ||||
| 316055.RPE_4154 | + | ||||
| 316055.RPE_1474 | (PF01442) | ||||
| 316055.RPE_0015 | + | ||||
| 316055.RPE_2646 | + | ||||
| 316055.RPE_1041 | + | ||||
| 316055.RPE_1519 | + | ||||
| 316055.RPE_1838 | + | ||||
| 316055.RPE_3384 | (PF05050) | ||||
| 316055.RPE_3701 | (PF01541) | ||||
| 316055.RPE_3252 | (PF13589) | ||||
| 316055.RPE_2279 | (PF01541) | ||||
| 316055.RPE_1075 | + | ||||
| 316055.RPE_1920 | + | ||||
| 316055.RPE_0038 | + | ||||
| 316055.RPE_2862 | + | ||||
| 316055.RPE_2281 | (PF01541) | ||||
| 316055.RPE_0281 | + | ||||
| 316055.RPE_4532 | (PF00148) | ||||
| 316055.RPE_4531 | (PF00148) | ||||
| 316055.RPE_4530 | (PF00148) | ||||
| 316055.RPE_4264 | + | ||||
| 316055.RPE_0442 | (PF01541) | ||||
| 316055.RPE_1170 | + | ||||
| 316055.RPE_1348 | (PF00148) | ||||
| 316055.RPE_1347 | (PF00148) | ||||
| 316055.RPE_0683 | + | ||||
| 316055.RPE_0394 | + | ||||
| 316055.RPE_4529 | (PF00148) | ||||
| 316055.RPE_3883 | (PF00148) | ||||
| 316055.RPE_3881 | (PF00148) | ||||
| 316055.RPE_0255 | + | ||||
| 316055.RPE_4299 | + | ||||
| 316055.RPE_4276 | + | ||||
| 316055.RPE_3188 | (PF00148) | ||||
| 316055.RPE_3678 | (PF00016) | ||||
| 316055.RPE_3523 | + | ||||
| 316055.RPE_2109 | (PF01541) | ||||
| 316055.RPE_1257 | + | ||||
| 316055.RPE_3980 | + | ||||
| 316055.RPE_0839 | + | ||||
| 316055.RPE_0162 | + | ||||
| 316055.RPE_2820 | + | ||||
| 316055.RPE_3530 | + | ||||
| 316055.RPE_3443 | + | ||||
| 316055.RPE_4503 | (PF05706) | ||||
| 316055.RPE_4897 | (PF13589) | ||||
| 316055.RPE_1113 | (PF05050) | ||||
| 316055.RPE_0374 | + | ||||
| 316055.RPE_1978 | + | ||||
| 316055.RPE_0082 | (PF05050) | ||||
| 316055.RPE_2834 | PF03367 | ||||
| 316055.RPE_2120 | (PF01541) | ||||
| 316055.RPE_3895 | + | ||||
| 316055.RPE_0134 | + | ||||
| 316055.RPE_4137 | + | ||||
| 316055.RPE_1890 | + | ||||
| 316055.RPE_2150 | (PF00303) | ||||
| 316055.RPE_4781 | + | ||||
| 316055.RPE_0924 | (PF01541) | ||||
| 316055.RPE_3142 | + | ||||
| 316055.RPE_2149 | (PF00303) | ||||
| 316055.RPE_3563 | + | ||||
| 316055.RPE_4333 | (PF03098) |
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 = 0.7 (7/10 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 = 0.7 (7/10 KEGG proteins)
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