Effective results for Methylibium petroleiphilum PM1 (eggnog40)

Summary

Number of putative secreted proteins: 36
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 8 eukaryotic-like domains, contained in 36 proteins (0 high, 36 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
420662.Mpe_A0473				(PF01011)	ER
420662.Mpe_A0905				(PF01011)	ER
420662.Mpe_A0476				(PF01011)	ER
420662.Mpe_A0363				(PF01011)	ER
420662.Mpe_A0966				(PF14870)	ER
420662.Mpe_A0382				(PF05598)	(mitochondrial)
420662.Mpe_A0877				(PF01011)	(ER)
420662.Mpe_A3393				(PF01011)	ER
420662.Mpe_A2775				(PF00316)	(mitochondrial)
420662.Mpe_A2792				(PF00162)	(plastid)
420662.Mpe_A2598				(PF05598)	(mitochondrial)
420662.Mpe_A0887				(PF14870)	(mitochondrial)
420662.Mpe_A0289				(PF00162)	(mitochondrial)
420662.Mpe_A0854				(PF05598)
420662.Mpe_A3819				(PF05598)
420662.Mpe_A1712				(PF05598)
420662.Mpe_A1479				(PF00101)
420662.Mpe_A2992				(PF05598)
420662.Mpe_A2990				(PF05598)
420662.Mpe_A2740				(PF05598)
420662.Mpe_A1053				(PF05598)
420662.Mpe_A2988				(PF05598)
420662.Mpe_A2965				(PF05598)
420662.Mpe_A2783				(PF00101)
420662.Mpe_A2788				(PF00316)
420662.Mpe_A2444				(PF05598)
420662.Mpe_A0944				(PF14870)
420662.Mpe_A1481				(PF00316)
420662.Mpe_A2596				(PF05598)
420662.Mpe_A3327				(PF05598)
420662.Mpe_A2054				(PF10013)
420662.Mpe_A2271				(PF14870)
420662.Mpe_A2538				(PF05598)
420662.Mpe_A2016				(PF04305)
420662.Mpe_A2019				(PF04305)
420662.Mpe_A2600				(PF05598)

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