Effective results for Allochromatium vinosum DSM 180 (eggnog40)

Summary

Number of putative secreted proteins: 67
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 17 eukaryotic-like domains, contained in 67 proteins (0 high, 67 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
572477.Alvin_3121				(PF12159) (PF10693)	ER; (ER)
572477.Alvin_0599				(PF14295)	ER
572477.Alvin_0242				(PF01627)	(ER); ER
572477.Alvin_2874				(PF01627)	ER
572477.Alvin_0999				(PF01427)	ER
572477.Alvin_1374				(PF01627)	(ER)
572477.Alvin_2612				(PF01627)	ER
572477.Alvin_0233				(PF14252)	(ER)
572477.Alvin_2751				(PF00101)	plastid
572477.Alvin_3066				(PF08446) (PF00360)
572477.Alvin_0326				(PF01496)	(mitochondrial)
572477.Alvin_0435				(PF08446) (PF00360)
572477.Alvin_0644				(PF14279)	(plastid)
572477.Alvin_2299				(PF05706)	(mitochondrial)
572477.Alvin_1581				(PF14279)	(plastid)
572477.Alvin_1343				(PF08446) (PF00360)
572477.Alvin_1579				(PF01627)	(ER)
572477.Alvin_1373				(PF01627) (PF01739)
572477.Alvin_1372				(PF01627)	(ER)
572477.Alvin_1055				(PF14279)	(plastid)
572477.Alvin_0710				(PF08446) (PF00360)
572477.Alvin_1444				(PF14279)	(plastid)
572477.Alvin_2210				(PF14279)	(plastid)
572477.Alvin_0724				(PF01627)	(ER)
572477.Alvin_2513				(PF01627)
572477.Alvin_0590				(PF01627)
572477.Alvin_0592				(PF01627)
572477.Alvin_0593				(PF01739)
572477.Alvin_2749				(PF00101)
572477.Alvin_2236				(PF01739)
572477.Alvin_2238				(PF01627)
572477.Alvin_1477				(PF14701)
572477.Alvin_2750				(PF00016)
572477.Alvin_1365				(PF00016)
572477.Alvin_1366				(PF00101)
572477.Alvin_0260				(PF01627)
572477.Alvin_2334				(PF01627)
572477.Alvin_0664				(PF01739)
572477.Alvin_0881				(PF05706)
572477.Alvin_2470				(PF01627)
572477.Alvin_2318				(PF01739)
572477.Alvin_2488				(PF01627)
572477.Alvin_2468				(PF01739)
572477.Alvin_2919				(PF01627)
572477.Alvin_1355				(PF01496)
572477.Alvin_1352				(PF01991)
572477.Alvin_1169				(PF01739)
572477.Alvin_0996				(PF01427)
572477.Alvin_0752				(PF01739)
572477.Alvin_0751				(PF01627)
572477.Alvin_0192				(PF01627)
572477.Alvin_2931				(PF14252)
572477.Alvin_1576				(PF01739)
572477.Alvin_1376				(PF01627)
572477.Alvin_2545				(PF00016)
572477.Alvin_1490				(PF01627)
572477.Alvin_2605				(PF01627)
572477.Alvin_1733				(PF01427)
572477.Alvin_0232				(PF14252)
572477.Alvin_1056				(PF01627)
572477.Alvin_1054				(PF01627)
572477.Alvin_2621				(PF01627)
572477.Alvin_2882				(PF01739)
572477.Alvin_2970				(PF01947)
572477.Alvin_3112				(PF14279)
572477.Alvin_0485				(PF01627)
572477.Alvin_2166				(PF01627)

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