Effective results for Rhodomicrobium vannielii ATCC 17100 (eggnog40)

Summary

Number of putative secreted proteins: 73
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 12 eukaryotic-like domains, contained in 73 proteins (2 high, 71 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): None

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
648757.Rvan_0412				(PF03050)	mitochondrial
648757.Rvan_0352				(PF00839)	ER
648757.Rvan_1003				(PF03209)	ER
648757.Rvan_2671				(PF03050)	mitochondrial
648757.Rvan_1902				(PF03050)	mitochondrial
648757.Rvan_2449				(PF03050)	mitochondrial
648757.Rvan_3557				(PF00148)	(mitochondrial); mitochondrial
648757.Rvan_2050				(PF03050)	mitochondrial
648757.Rvan_1957				(PF00148)	(mitochondrial)
648757.Rvan_0391				(PF03050)	mitochondrial
648757.Rvan_1442				(PF03050)	mitochondrial
648757.Rvan_3645				(PF06455)	ER
648757.Rvan_2341				(PF00839)	ER
648757.Rvan_1502				(PF03050)	mitochondrial
648757.Rvan_1478				(PF03050)	mitochondrial
648757.Rvan_2757				PF00014	ER
648757.Rvan_2224				PF08017	(mitochondrial)
648757.Rvan_2327				(PF03209)	(ER)
648757.Rvan_0323				(PF13565)	(plastid)
648757.Rvan_0506				(PF00148)	plastid
648757.Rvan_1908				(PF13565)	(plastid)
648757.Rvan_3171				(PF13565)	(plastid)
648757.Rvan_0396				(PF13565)	(plastid)
648757.Rvan_3060				(PF13565)	(plastid)
648757.Rvan_0717				(PF13565)	(plastid)
648757.Rvan_1534				(PF01527) (PF03050)
648757.Rvan_3360				(PF00148)	(plastid)
648757.Rvan_1292				(PF13565)	(plastid)
648757.Rvan_2209				(PF13565)	(plastid)
648757.Rvan_3137				(PF13565)	(plastid)
648757.Rvan_0028				(PF13565)	(plastid)
648757.Rvan_0410				(PF01527)
648757.Rvan_1783				(PF01527)
648757.Rvan_2474				(PF01527)
648757.Rvan_2476				(PF03050)
648757.Rvan_1434				(PF01527)
648757.Rvan_1926				(PF05875)
648757.Rvan_1432				(PF03050)
648757.Rvan_0507				(PF00148)
648757.Rvan_0514				(PF00148)
648757.Rvan_0516				(PF00148)
648757.Rvan_2673				(PF01527)
648757.Rvan_2451				(PF01527)
648757.Rvan_1900				(PF01527)
648757.Rvan_1769				(PF01527)
648757.Rvan_1767				(PF03050)
648757.Rvan_0997				(PF00148)
648757.Rvan_0993				(PF03209)
648757.Rvan_0998				(PF00148)
648757.Rvan_3152				(PF01527)
648757.Rvan_0192				(PF00016)
648757.Rvan_1970				(PF00016)
648757.Rvan_1480				(PF01527)
648757.Rvan_2052				(PF01527)
648757.Rvan_3558				(PF00148)
648757.Rvan_3177				(PF03050)
648757.Rvan_3179				(PF01527)
648757.Rvan_1956				(PF00148)
648757.Rvan_1954				(PF00148)
648757.Rvan_1955				(PF00148)
648757.Rvan_0393				(PF01527)
648757.Rvan_0010				(PF00016)
648757.Rvan_3590				(PF00148)
648757.Rvan_3591				(PF00148)
648757.Rvan_1440				(PF01527)
648757.Rvan_2185				(PF12576)
648757.Rvan_3362				(PF00148)
648757.Rvan_0858				(PF05875)
648757.Rvan_0212				(PF00148)
648757.Rvan_0211				(PF00148)
648757.Rvan_1500				(PF01527)
648757.Rvan_1790				(PF03050)
648757.Rvan_1792				(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

• 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: NO (FDR = 7.2 %)
• 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=
==========================================================