Effective results for Agrobacterium sp. H13-3 (eggnog40)
Summary
Number of putative secreted proteins: 90
- Predicted by T4SEpre: 81
- Predicted by EffectiveELD: 10 eukaryotic-like domains, contained in 18 proteins (0 high, 18 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 |
---|---|---|---|---|---|
861208.AGROH133_07458 | + | ER | |||
861208.AGROH133_06853 | + | (mitochondrial); mitochondrial | |||
861208.AGROH133_07921 | (PF00127) | ER | |||
861208.AGROH133_13147 | + | mitochondrial | |||
861208.AGROH133_13780 | + | ER | |||
861208.AGROH133_05769 | + | ER; (mitochondrial) | |||
861208.AGROH133_03108 | + | ER | |||
861208.AGROH133_10003 | + | (mitochondrial); (plastid) | |||
861208.AGROH133_03258 | + | ER | |||
861208.AGROH133_07219 | + | (mitochondrial) | |||
861208.AGROH133_11490 | + | ER | |||
861208.AGROH133_04180 | + | mitochondrial | |||
861208.AGROH133_13026 | + | ER | |||
861208.AGROH133_05994 | (PF00127) | ER; (ER) | |||
861208.AGROH133_05526 | (PF00127) | ER | |||
861208.AGROH133_12283 | + | ER | |||
861208.AGROH133_07317 | + | ER | |||
861208.AGROH133_04238 | + | ER | |||
861208.AGROH133_12657 | (PF00127) | ER | |||
861208.AGROH133_05889 | + | ER; (ER) | |||
861208.AGROH133_05653 | (PF06455) | ER | |||
861208.AGROH133_08171 | + | ER | |||
861208.AGROH133_07643 | + | (mitochondrial) | |||
861208.AGROH133_09159 | + | (ER) | |||
861208.AGROH133_09613 | (PF00091) (PF12327) | ||||
861208.AGROH133_06099 | + | (mitochondrial) | |||
861208.AGROH133_08903 | + | plastid | |||
861208.AGROH133_06792 | + | (ER) | |||
861208.AGROH133_07407 | (PF00091) (PF12327) | ||||
861208.AGROH133_13075 | (PF00091) (PF12327) | ||||
861208.AGROH133_03418 | + | (mitochondrial) | |||
861208.AGROH133_12052 | + | (mitochondrial) | |||
861208.AGROH133_06516 | + | (plastid) | |||
861208.AGROH133_06730 | + | ||||
861208.AGROH133_03976 | + | ||||
861208.AGROH133_03574 | + | ||||
861208.AGROH133_02996 | + | ||||
861208.AGROH133_12757 | + | ||||
861208.AGROH133_13979 | (PF16387) | ||||
861208.AGROH133_10454 | + | ||||
861208.AGROH133_08313 | + | ||||
861208.AGROH133_09958 | (PF05168) | ||||
861208.AGROH133_12169 | + | ||||
861208.AGROH133_11551 | + | ||||
861208.AGROH133_11958 | + | ||||
861208.AGROH133_03757 | + | ||||
861208.AGROH133_06419 | + | ||||
861208.AGROH133_08879 | (PF09731) | ||||
861208.AGROH133_09338 | (PF05168) | ||||
861208.AGROH133_11545 | + | ||||
861208.AGROH133_04421 | + | ||||
861208.AGROH133_05154 | + | ||||
861208.AGROH133_04608 | + | ||||
861208.AGROH133_14029 | (PF05168) | ||||
861208.AGROH133_05495 | + | ||||
861208.AGROH133_04612 | + | ||||
861208.AGROH133_10142 | (PF16332) | ||||
861208.AGROH133_07124 | + | ||||
861208.AGROH133_06972 | + | ||||
861208.AGROH133_05825 | + | ||||
861208.AGROH133_12457 | + | ||||
861208.AGROH133_08153 | + | ||||
861208.AGROH133_08821 | + | ||||
861208.AGROH133_05223 | + | ||||
861208.AGROH133_07760 | + | ||||
861208.AGROH133_11220 | + | ||||
861208.AGROH133_09818 | + | ||||
861208.AGROH133_04675 | + | ||||
861208.AGROH133_14113 | + | ||||
861208.AGROH133_14067 | + | ||||
861208.AGROH133_11186 | + | ||||
861208.AGROH133_11436 | (PF00127) | ||||
861208.AGROH133_05029 | + | ||||
861208.AGROH133_05596 | + | ||||
861208.AGROH133_06649 | + | ||||
861208.AGROH133_10885 | + | ||||
861208.AGROH133_09258 | + | ||||
861208.AGROH133_08502 | + | ||||
861208.AGROH133_10101 | + | ||||
861208.AGROH133_03186 | + | ||||
861208.AGROH133_04136 | + | ||||
861208.AGROH133_09345 | (PF05168) | ||||
861208.AGROH133_12934 | + | ||||
861208.AGROH133_07312 | + | ||||
861208.AGROH133_05796 | (PF01442) | ||||
861208.AGROH133_05872 | + | ||||
861208.AGROH133_08521 | + | ||||
861208.AGROH133_07651 | + | ||||
861208.AGROH133_07163 | + | ||||
861208.AGROH133_02966 | (PF08975) |
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 = 0.1 (1/10 KEGG proteins)
- Functional Type VI secretion system: YES (FDR = 7.7 %)
Estimated copy number = 1.125 (9/8 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 = 0.1 (1/10 KEGG proteins)
Estimated copy number = 1.125 (9/8 KEGG proteins)