Effective results for Brevundimonas diminuta ATCC 11568 (eggnog40)

Summary

Number of putative secreted proteins: 40
- Predicted by T4SEpre: 34
- Predicted by EffectiveELD: 6 eukaryotic-like domains, contained in 9 proteins (0 high, 9 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
751586.BDIM_09710			+		(mitochondrial); (plastid)
751586.BDIM_00830			+		ER
751586.BDIM_26420			+		mitochondrial
751586.BDIM_19420			+		ER
751586.BDIM_11700			+		ER
751586.BDIM_19370			+		ER
751586.BDIM_19050				(PF15891)	ER
751586.BDIM_08480				(PF13759) (PF09295)
751586.BDIM_01630				(PF10544)
751586.BDIM_30310				(PF10544)
751586.BDIM_27820			+
751586.BDIM_23530				(PF02224)
751586.BDIM_23520				(PF02224)
751586.BDIM_12870			+
751586.BDIM_01100			+
751586.BDIM_29100			+
751586.BDIM_23600			+
751586.BDIM_15720			+
751586.BDIM_09290			+
751586.BDIM_06850			+
751586.BDIM_08980			+
751586.BDIM_10390			+
751586.BDIM_21480				(PF13661)
751586.BDIM_09170			+
751586.BDIM_15370			+
751586.BDIM_02800			+
751586.BDIM_08430			+
751586.BDIM_07210			+
751586.BDIM_18110			+
751586.BDIM_03690			+
751586.BDIM_07990				(PF13661)
751586.BDIM_00810			+
751586.BDIM_15970			+
751586.BDIM_02100			+
751586.BDIM_24360			+
751586.BDIM_20260			+
751586.BDIM_11850			+
751586.BDIM_04190			+
751586.BDIM_08290			+
751586.BDIM_11030				(PF13759)

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 = 1.0 (10/10 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=
==========================================================