Effective results for Photobacterium damselae subsp. damselae CIP 102761 (eggnog40)

Summary

Number of putative secreted proteins: 53
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 23 eukaryotic-like domains, contained in 53 proteins (0 high, 53 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
675817.VDA_003043				(PF00939)	ER
675817.VDA_002813				(PF07662)	(ER)
675817.VDA_002288				(PF14863)	ER
675817.VDA_002544				(PF00030)	ER
675817.VDA_001126				(PF02275)	ER
675817.VDA_001705				(PF00939)	ER
675817.VDA_003001				(PF00939)	ER
675817.VDA_000670				(PF00939)	ER
675817.VDA_002761				(PF16116)	(ER)
675817.VDA_002346				(PF07168)	ER
675817.VDA_002378				(PF03222)	ER
675817.VDA_001987				(PF10462)	ER
675817.VDA_001066				(PF02884)	ER
675817.VDA_001064				(PF02884)	ER
675817.VDA_002313				(PF07662)	ER
675817.VDA_000638				(PF02275)	ER
675817.VDA_000493				(PF14863)	ER
675817.VDA_000495				(PF14863)	ER
675817.VDA_000204				(PF00030)	ER
675817.VDA_000814				(PF16116)	ER
675817.VDA_001789				(PF07662)	ER
675817.VDA_002079				(PF08180)	ER
675817.VDA_001377				(PF03222)	(ER)
675817.VDA_001973				(PF07662)	ER
675817.VDA_001792				(PF03222)	ER
675817.VDA_001572				(PF02112)	ER
675817.VDA_000419				(PF03199) (PF03917)
675817.VDA_003058				(PF13207)	plastid
675817.VDA_000246				(PF03477)
675817.VDA_000243				(PF13518)
675817.VDA_002241				(PF00031)
675817.VDA_002021				(PF00939)
675817.VDA_000415				(PF12344)
675817.VDA_001623				(PF12344)
675817.VDA_000893				(PF07662)
675817.VDA_000443				(PF03477)
675817.VDA_000292				(PF09830)
675817.VDA_003207				(PF12588)
675817.VDA_002372				(PF03477)
675817.VDA_002799				(PF03945)
675817.VDA_001450				(PF03222)
675817.VDA_000031				(PF13518)
675817.VDA_002093				(PF13518)
675817.VDA_001836				(PF03222)
675817.VDA_000636				(PF13518)
675817.VDA_000122				(PF13518)
675817.VDA_000203				(PF00102)
675817.VDA_002682				(PF03477)
675817.VDA_001029				(PF13518)
675817.VDA_001793				(PF09830)
675817.VDA_000224				(PF00102)
675817.VDA_002269				(PF02275)
675817.VDA_000231				(PF03477)

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 = 1.25 (10/8 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=
==========================================================