Effective results for Rickettsiella grylli (eggnog40)

Summary

Number of putative secreted proteins: 97
- Predicted by T4SEpre: 95
- Predicted by EffectiveELD: 9 eukaryotic-like domains, contained in 32 proteins (5 high, 27 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
59196.RICGR_0484			+		ER
59196.RICGR_1478			+		mitochondrial; (mitochondrial)
59196.RICGR_0720				(PF00161)	ER
59196.RICGR_0827			+		mitochondrial; (mitochondrial)
59196.RICGR_0525				(PF13637)	mitochondrial
59196.RICGR_1245			+		(ER)
59196.RICGR_0835			+		(mitochondrial)
59196.RICGR_0834			+		(mitochondrial)
59196.RICGR_0631			+		ER
59196.RICGR_0745			+		ER
59196.RICGR_0190			+		ER
59196.RICGR_0160				(PF13637)	(mitochondrial)
59196.RICGR_1209			+		ER
59196.RICGR_1110			+		ER
59196.RICGR_0792			+		(ER)
59196.RICGR_1414			+		ER
59196.RICGR_0552			+		(ER)
59196.RICGR_1403			+		ER
59196.RICGR_1547			+		ER
59196.RICGR_0543			+		ER
59196.RICGR_0842			+		ER
59196.RICGR_1156			+		ER
59196.RICGR_1150			+		ER
59196.RICGR_0008			+		(ER)
59196.RICGR_1344			+	(PF16715)
59196.RICGR_0139			+	(PF16715)
59196.RICGR_0420			+		(mitochondrial)
59196.RICGR_0358			+		(ER)
59196.RICGR_0319				PF08373	(mitochondrial)
59196.RICGR_1541			+		(ER)
59196.RICGR_1182				(PF02178)	(mitochondrial)
59196.RICGR_0710			+
59196.RICGR_0716			+
59196.RICGR_0717				PF06597
59196.RICGR_0718				PF06597
59196.RICGR_0908			+
59196.RICGR_0870				(PF00023)
59196.RICGR_0679			+
59196.RICGR_1273			+
59196.RICGR_0675			+
59196.RICGR_0013				(PF00872)
59196.RICGR_0010				(PF00872)
59196.RICGR_0803			+
59196.RICGR_1281			+
59196.RICGR_0247			+
59196.RICGR_0738				(PF13637)
59196.RICGR_0739			+
59196.RICGR_0722			+
59196.RICGR_0291				(PF00872)
59196.RICGR_0445				(PF00872)
59196.RICGR_0442				(PF00872)
59196.RICGR_1247			+
59196.RICGR_0620			+
59196.RICGR_0280			+
59196.RICGR_0838			+
59196.RICGR_0637			+
59196.RICGR_1138			+
59196.RICGR_1008			+
59196.RICGR_0510			+
59196.RICGR_0198				PF08964
59196.RICGR_0172			+
59196.RICGR_0177			+
59196.RICGR_1105			+
59196.RICGR_0613				PF08964
59196.RICGR_0501			+
59196.RICGR_0180			+
59196.RICGR_0672			+
59196.RICGR_0477				(PF00023)
59196.RICGR_0975				(PF00872)
59196.RICGR_0885			+
59196.RICGR_1027			+
59196.RICGR_1201			+
59196.RICGR_0960			+
59196.RICGR_1567				(PF00872)
59196.RICGR_1308			+
59196.RICGR_1416				(PF00872)
59196.RICGR_1418				(PF00872)
59196.RICGR_0781			+
59196.RICGR_1094			+
59196.RICGR_1545				(PF00872)
59196.RICGR_1543				(PF00872)
59196.RICGR_0302				(PF00872)
59196.RICGR_0438			+
59196.RICGR_0930				(PF00872)
59196.RICGR_1430			+
59196.RICGR_0843			+
59196.RICGR_1558			+
59196.RICGR_1333			+
59196.RICGR_1427			+
59196.RICGR_0852			+
59196.RICGR_0851				(PF00023)
59196.RICGR_1521				(PF13637)
59196.RICGR_1522				(PF00872)
59196.RICGR_0211			+
59196.RICGR_0218				(PF00872)
59196.RICGR_0869			+
59196.RICGR_0141				(PF00872)

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