Effective results for Acetobacter pasteurianus IFO 3283-01 (eggnog40)

Summary

Number of putative secreted proteins: 75
- Predicted by T4SEpre: 63
- Predicted by EffectiveELD: 4 eukaryotic-like domains, contained in 21 proteins (1 high, 20 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
634452.APA01_23520			+		(ER)
634452.APA01_09340			+		(mitochondrial)
634452.APA01_18850			+		ER
634452.APA01_19450			+		(ER)
634452.APA01_20400			+		ER
634452.APA01_14260			+		(ER)
634452.APA01_02000			+		(mitochondrial); plastid
634452.APA01_01740			+		mitochondrial; (mitochondrial)
634452.APA01_15180			+		(mitochondrial)
634452.APA01_08740			+		mitochondrial
634452.APA01_19200			+		(mitochondrial)
634452.APA01_16680			+		(mitochondrial)
634452.APA01_00880			+		(ER)
634452.APA01_12820			+		mitochondrial
634452.APA01_24700			+		ER
634452.APA01_12310			+		(mitochondrial)
634452.APA01_24020			+		(mitochondrial)
634452.APA01_10620			+		mitochondrial
634452.APA01_23210			+		(mitochondrial); (ER)
634452.APA01_01690			+		(mitochondrial)
634452.APA01_23510			+		(mitochondrial); mitochondrial
634452.APA01_01190			+		(mitochondrial)
634452.APA01_15000			+		ER
634452.APA01_11560			+		(mitochondrial)
634452.APA01_22790			+		(ER)
634452.APA01_11600			+		(mitochondrial)
634452.APA01_09540			+		(mitochondrial)
634452.APA01_19870			+		(mitochondrial)
634452.APA01_13870			+		(plastid)
634452.APA01_19070			+		(ER)
634452.APA01_25340			+	PF01387
634452.APA01_22910			+		(mitochondrial)
634452.APA01_17380			+
634452.APA01_17890				(PF01527)
634452.APA01_08320			+
634452.APA01_08170				(PF01527)
634452.APA01_20780			+
634452.APA01_01800				(PF01527)
634452.APA01_08370				(PF01527)
634452.APA01_03620			+
634452.APA01_24050				(PF01527)
634452.APA01_09210			+
634452.APA01_08620			+
634452.APA01_19310				(PF06258)
634452.APA01_21650				(PF01527)
634452.APA01_16988			+
634452.APA01_10400			+
634452.APA01_18780				(PF01527)
634452.APA01_17970			+
634452.APA01_23860				(PF01527)
634452.APA01_19420			+
634452.APA01_18240				(PF01527)
634452.APA01_26420			+
634452.APA01_00520			+
634452.APA01_07150			+
634452.APA01_17950				(PF01527)
634452.APA01_08650			+
634452.APA01_20960				(PF01527)
634452.APA01_18880			+
634452.APA01_06440			+
634452.APA01_11350			+
634452.APA01_04360			+
634452.APA01_08410				(PF01527)
634452.APA01_14310				(PF01527)
634452.APA01_18190			+
634452.APA01_15860				(PF01527)
634452.APA01_21230				(PF06258)
634452.APA01_11370			+
634452.APA01_21150			+
634452.APA01_23970				(PF01527)
634452.APA01_14360				(PF01527)
634452.APA01_06470			+
634452.APA01_09860			+
634452.APA01_01070				(PF12513)
634452.APA01_20880				(PF01527)

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 = 0.3 (3/10 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=
==========================================================