Effective results for marine gamma proteobacterium HTCC2080 (eggnog40)

Summary

Number of putative secreted proteins: 67
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 20 eukaryotic-like domains, contained in 67 proteins (1 high, 66 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
247639.MGP2080_13728				(PF06863) (PF06742)	ER
247639.MGP2080_08484				(PF06863) (PF06742)	ER
247639.MGP2080_01716				(PF06863) (PF06742)	ER
247639.MGP2080_01541				(PF06863) (PF06742)	ER
247639.MGP2080_08876				(PF06863) (PF06742)	ER; (ER)
247639.MGP2080_11378				(PF06863) (PF06742)	ER
247639.MGP2080_01796				(PF13450)	(ER)
247639.MGP2080_13723				(PF06742)	(ER)
247639.MGP2080_14696				(PF06863) (PF06742)	(ER)
247639.MGP2080_14826				(PF13450)	ER
247639.MGP2080_09943				(PF06742)	ER
247639.MGP2080_08836				PF01222	ER
247639.MGP2080_10468				(PF02544)	ER
247639.MGP2080_10138				(PF03209)	(ER)
247639.MGP2080_12043				(PF08732)	(mitochondrial)
247639.MGP2080_01761				(PF17048)	(ER)
247639.MGP2080_10183				(PF03209)	(ER)
247639.MGP2080_01446				(PF05721)
247639.MGP2080_10398				(PF06742)
247639.MGP2080_00920				(PF13450)
247639.MGP2080_14706				(PF13582)
247639.MGP2080_06942				(PF05721)
247639.MGP2080_01155				(PF14863)
247639.MGP2080_13864				(PF05721)
247639.MGP2080_11358				(PF13450)
247639.MGP2080_11613				(PF14336)
247639.MGP2080_12833				(PF00848)
247639.MGP2080_02510				(PF00848)
247639.MGP2080_11583				(PF11815)
247639.MGP2080_10758				(PF03982)
247639.MGP2080_13063				(PF00848)
247639.MGP2080_08916				(PF16884)
247639.MGP2080_02500				(PF05721)
247639.MGP2080_14476				(PF13759)
247639.MGP2080_13914				(PF13450)
247639.MGP2080_11643				(PF13450)
247639.MGP2080_05040				(PF13450)
247639.MGP2080_02086				(PF00848)
247639.MGP2080_12653				(PF00848)
247639.MGP2080_06712				(PF10013)	not used
247639.MGP2080_13228				(PF00848)
247639.MGP2080_13133				(PF00848)
247639.MGP2080_14014				(PF13450)
247639.MGP2080_15011				(PF05721)	not used
247639.MGP2080_07724				(PF13759)
247639.MGP2080_13238				(PF16884)
247639.MGP2080_09703				(PF05721)
247639.MGP2080_13128				(PF16884)
247639.MGP2080_05010				(PF05721)
247639.MGP2080_01816				(PF13450)
247639.MGP2080_02141				(PF13450)
247639.MGP2080_14801				(PF14863)
247639.MGP2080_02171				(PF16884)
247639.MGP2080_09031				(PF05721)
247639.MGP2080_13108				(PF16884)
247639.MGP2080_08671				(PF10504)
247639.MGP2080_13964				(PF13450)
247639.MGP2080_10133				(PF13450)
247639.MGP2080_09738				(PF13450)
247639.MGP2080_13178				(PF00848)
247639.MGP2080_09026				(PF09825)
247639.MGP2080_05020				(PF00848)
247639.MGP2080_07057				(PF16884)
247639.MGP2080_06582				(PF14863)
247639.MGP2080_04085				(PF00848)
247639.MGP2080_15899				(PF05721)
247639.MGP2080_02481				(PF00848)

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