Effective results for Brevundimonas subvibrioides ATCC 15264 (eggnog40)

Summary

Number of putative secreted proteins: 59
- Predicted by T4SEpre: 52
- Predicted by EffectiveELD: 11 eukaryotic-like domains, contained in 17 proteins (4 high, 13 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
633149.Bresu_0528			+		ER
633149.Bresu_2700			+		ER
633149.Bresu_0478			+		ER; (ER)
633149.Bresu_0256				(PF06241)	(mitochondrial)
633149.Bresu_1180				(PF06764)	mitochondrial
633149.Bresu_0453				(PF06764)	ER
633149.Bresu_3235			+		ER
633149.Bresu_1460			+		ER
633149.Bresu_0334			+		ER
633149.Bresu_2775			+		ER
633149.Bresu_2306				(PF13759)	(ER)
633149.Bresu_2438			+		(ER); (mitochondrial)
633149.Bresu_3059				(PF03209)	ER
633149.Bresu_3193			+		ER
633149.Bresu_1748			+		ER
633149.Bresu_0868			+		ER
633149.Bresu_1939			+		(mitochondrial)
633149.Bresu_1392			+		(ER)
633149.Bresu_1621			+		(plastid)
633149.Bresu_2014			+
633149.Bresu_2386			+
633149.Bresu_1395				PF06320
633149.Bresu_2603			+
633149.Bresu_1411			+
633149.Bresu_0255			+
633149.Bresu_2051			+
633149.Bresu_0457			+
633149.Bresu_0058			+
633149.Bresu_0834				(PF10013)
633149.Bresu_2417			+
633149.Bresu_1681			+
633149.Bresu_2078				(PF13281)
633149.Bresu_2945			+
633149.Bresu_2540			+
633149.Bresu_1150			+
633149.Bresu_1531			+
633149.Bresu_3206				(PF11625)
633149.Bresu_1167			+
633149.Bresu_0542				PF13661
633149.Bresu_0543				PF13661
633149.Bresu_0784			+
633149.Bresu_0973			+
633149.Bresu_1765				(PF13759)
633149.Bresu_1766				PF13661
633149.Bresu_0499			+
633149.Bresu_0560			+
633149.Bresu_0692			+
633149.Bresu_3325			+
633149.Bresu_2738				(PF04664)
633149.Bresu_1324			+
633149.Bresu_0984			+
633149.Bresu_0352			+
633149.Bresu_2069			+
633149.Bresu_3200			+
633149.Bresu_3079				(PF07787)
633149.Bresu_2816				(PF11625)
633149.Bresu_2491			+
633149.Bresu_3229			+
633149.Bresu_3069				(PF03209)

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=
==========================================================