Effective results for Paracoccus sp. TRP (eggnog40)

Summary

Number of putative secreted proteins: 26
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 10 eukaryotic-like domains, contained in 26 proteins (4 high, 22 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): (Type VI)

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
412597.PaTRP_010100000585				(PF00777)	mitochondrial; (mitochondrial)
412597.PaTRP_010100001629				(PF02485)	(mitochondrial)
412597.PaTRP_010100012869				(PF01323)	ER
412597.PaTRP_010100019122				(PF01323)	ER
412597.PaTRP_010100007884				(PF04800)	mitochondrial; (mitochondrial)
412597.PaTRP_010100018905				(PF01323)	ER
412597.PaTRP_010100019117				(PF01323)	(ER)
412597.PaTRP_010100015832				(PF13872) (PF13871)
412597.PaTRP_010100017938				(PF04800)	(plastid)
412597.PaTRP_010100016297				(PF13872) (PF13871)
412597.PaTRP_010100014138				(PF01323)	(ER)
412597.PaTRP_010100015492				(PF01323)
412597.PaTRP_010100016971				PF09458
412597.PaTRP_010100017096				PF09458
412597.PaTRP_010100010309				(PF01323)
412597.PaTRP_010100014826				(PF04577)
412597.PaTRP_010100017933				(PF01192)
412597.PaTRP_010100012644				(PF13875)
412597.PaTRP_010100006049				(PF01323)
412597.PaTRP_010100010299				PF09458
412597.PaTRP_010100005224				(PF01192)
412597.PaTRP_010100002349				(PF04577)
412597.PaTRP_010100017801				(PF01323)
412597.PaTRP_010100012839				(PF02485)
412597.PaTRP_010100007824				(PF04577)
412597.PaTRP_010100019824				PF09458

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: YES (FDR = 7.7 %)
  Estimated copy number = 0.25 (2/8 KEGG proteins)

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