Effective results for Coxiella burnetii RSA 493 (eggnog40)

Summary

Number of putative secreted proteins: 117
- Predicted by T4SEpre: 154
- Predicted by EffectiveELD: 8 eukaryotic-like domains, contained in 44 proteins (21 high, 23 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
227377.CBU_0616				(PF09419)	(ER)
227377.CBU_1425			+		ER
227377.CBU_1556			+		(ER)
227377.CBU_1758a			+	(PF02371)	(mitochondrial)
227377.CBU_1158				PF01222	ER
227377.CBU_0898				PF00086	ER
227377.CBU_1386			+		mitochondrial
227377.CBU_0770				PF13173	(ER)
227377.CBU_1352			+		ER
227377.CBU_2021				PF13173	(mitochondrial)
227377.CBU_1349			+		ER
227377.CBU_0698			+		mitochondrial
227377.CBU_0517			+		ER
227377.CBU_0014			+		ER
227377.CBU_1017				PF13173	mitochondrial
227377.CBU_1661			+		ER
227377.CBU_0077			+		(mitochondrial)
227377.CBU_1075			+		ER
227377.CBU_1217			+		(ER)
227377.CBU_0802			+		(mitochondrial)
227377.CBU_1221			+		ER
227377.CBU_1458				PF13173	mitochondrial
227377.CBU_1570b			+	(PF02371)
227377.CBU_1186			+	(PF02371)
227377.CBU_0040			+	(PF02371)
227377.CBU_1987b			+	(PF02371)
227377.CBU_1699a			+	(PF02371)
227377.CBU_1090			+	(PF02371)
227377.CBU_1705			+		(ER)
227377.CBU_0554			+	(PF02371)
227377.CBU_0175			+		(ER)
227377.CBU_0881			+		(plastid)
227377.CBU_1959b			+	(PF02371)
227377.CBU_1217a			+	(PF02371)
227377.CBU_0978			+		(mitochondrial)
227377.CBU_1896a			+	(PF02371)
227377.CBU_1335			+	PF08613
227377.CBU_2078			+		(mitochondrial)
227377.CBU_0384			+	(PF02371)
227377.CBU_1485			+	PF08613
227377.CBU_0523			+	(PF02371)
227377.CBU_1785			+	(PF02371)
227377.CBU_1877			+	PF13173
227377.CBU_1270			+	(PF02371)
227377.CBU_0006			+	(PF02371)
227377.CBU_1590b			+	(PF02371)
227377.CBU_1639c			+	(PF02371)
227377.CBU_1076			+	(PF02371)
227377.CBU_1716a			+	(PF02371)
227377.CBU_0661				PF13173	(ER)
227377.CBU_0610				(PF00368)
227377.CBU_1059			+
227377.CBU_1234				PF13173
227377.CBU_0041			+
227377.CBU_1087			+
227377.CBU_1724			+
227377.CBU_0635			+
227377.CBU_0447			+
227377.CBU_1543			+
227377.CBU_0158			+
227377.CBU_2012			+
227377.CBU_2016			+
227377.CBU_0937			+
227377.CBU_0626			+
227377.CBU_0388			+
227377.CBU_2007			+
227377.CBU_0425			+
227377.CBU_1387			+
227377.CBU_1569			+
227377.CBU_0885			+
227377.CBU_1825			+
227377.CBU_1823			+
227377.CBU_0410			+
227377.CBU_1178			+
227377.CBU_0562				PF13173
227377.CBU_1286				PF13173
227377.CBU_1284				PF13173
227377.CBU_0182				PF00961
227377.CBU_1769			+
227377.CBU_1763				PF13173
227377.CBU_0985			+
227377.CBU_1751			+
227377.CBU_1752			+
227377.CBU_2052			+
227377.CBU_0505			+
227377.CBU_0030				(PF00368)
227377.CBU_1638				PF13173
227377.CBU_1636			+
227377.CBU_0697			+
227377.CBU_1924			+
227377.CBU_0510			+
227377.CBU_0021			+
227377.CBU_1794			+
227377.CBU_1863			+
227377.CBU_0526			+
227377.CBU_1314			+
227377.CBU_1265			+
227377.CBU_1786				PF13173
227377.CBU_0781			+
227377.CBU_0794			+
227377.CBU_1685			+
227377.CBU_0683			+
227377.CBU_1206				PF01222
227377.CBU_0072			+
227377.CBU_1676			+
227377.CBU_1698				PF13173
227377.CBU_1691			+
227377.CBU_1079			+
227377.CBU_0480			+
227377.CBU_1508				PF13173
227377.CBU_0801			+
227377.CBU_0270			+
227377.CBU_0273			+
227377.CBU_0584			+
227377.CBU_0054			+
227377.CBU_0295			+
227377.CBU_0294			+

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