Effective results for Acinetobacter lwoffii SH145 (eggnog40)

Summary

Number of putative secreted proteins: 38
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 12 eukaryotic-like domains, contained in 38 proteins (15 high, 23 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
575588.HMPREF0017_00984				(PF13089) (PF13090) (PF02503)
575588.HMPREF0017_00064				(PF05704)	ER
575588.HMPREF0017_02017				(PF13089) (PF13090) (PF02503)
575588.HMPREF0017_01520				(PF00199)	ER
575588.HMPREF0017_02278				(PF13089) (PF13090) (PF02503)
575588.HMPREF0017_02984				(PF03959)	(ER)
575588.HMPREF0017_03003				(PF01679)	ER
575588.HMPREF0017_02947				(PF01679)	ER
575588.HMPREF0017_01078				(PF01679)	ER; not used
575588.HMPREF0017_02028				(PF00199)	(mitochondrial)
575588.HMPREF0017_02963				PF01051
575588.HMPREF0017_01125				(PF14328)
575588.HMPREF0017_02907				PF01051
575588.HMPREF0017_03045				(PF00199)	not used
575588.HMPREF0017_02284				(PF00199)
575588.HMPREF0017_02932				PF01051
575588.HMPREF0017_03060				PF01051
575588.HMPREF0017_03117				(PF03400)
575588.HMPREF0017_03116				(PF03400)
575588.HMPREF0017_03113				(PF03400)
575588.HMPREF0017_03118				(PF03400)
575588.HMPREF0017_03043				PF01051
575588.HMPREF0017_00932				PF08357
575588.HMPREF0017_03054				PF01051
575588.HMPREF0017_02695				(PF00199)
575588.HMPREF0017_03059				PF01051
575588.HMPREF0017_02862				(PF00199)
575588.HMPREF0017_03020				PF01051
575588.HMPREF0017_03027				PF01051
575588.HMPREF0017_02998				PF08357
575588.HMPREF0017_00917				(PF00199)
575588.HMPREF0017_03038				(PF00199)
575588.HMPREF0017_01432				(PF11815)
575588.HMPREF0017_03006				PF01051
575588.HMPREF0017_00209				(PF00199)
575588.HMPREF0017_02839				PF01051
575588.HMPREF0017_03014				PF01051
575588.HMPREF0017_02950				PF01051

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 = 0.625 (5/8 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=
==========================================================