Effective results for Treponema caldarium DSM 7334 (eggnog40)

Summary

Number of putative secreted proteins: 57
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 25 eukaryotic-like domains, contained in 57 proteins (5 high, 52 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
744872.Spica_1174				(PF04471)	ER
744872.Spica_1231				(PF12895)	ER
744872.Spica_0344				(PF16561)	ER
744872.Spica_0131				(PF14249)	mitochondrial; (mitochondrial)
744872.Spica_2061				(PF16561)	ER
744872.Spica_0071				PF03662	(mitochondrial)
744872.Spica_2200				PF01827	ER
744872.Spica_1494				(PF12895)	ER
744872.Spica_1150				(PF12895)	ER
744872.Spica_0364				(PF04471)	ER
744872.Spica_1659				(PF05034) (PF07476)
744872.Spica_0992				PF03727 PF00349
744872.Spica_2558				(PF09243)
744872.Spica_0804				(PF05598)
744872.Spica_1995				(PF05598)
744872.Spica_2082				(PF05598)
744872.Spica_2524				(PF05598)
744872.Spica_1503				(PF16886)
744872.Spica_1500				(PF01496)
744872.Spica_1501				(PF01813)
744872.Spica_1758				(PF04471)
744872.Spica_1753				(PF04471)
744872.Spica_0595				(PF01784)
744872.Spica_2187				(PF05598)
744872.Spica_1742				(PF05598)
744872.Spica_2448				PF10300
744872.Spica_2449				(PF05598)
744872.Spica_2447				(PF05598)
744872.Spica_1731				(PF04471)
744872.Spica_0284				(PF10974)
744872.Spica_0283				(PF05598)
744872.Spica_1464				(PF05598)
744872.Spica_2268				(PF05598)
744872.Spica_0717				(PF05598)
744872.Spica_1661				(PF14330)
744872.Spica_1291				(PF01875)
744872.Spica_2651				(PF16314)
744872.Spica_0642				(PF03266)
744872.Spica_2231				(PF05598)
744872.Spica_2232				(PF13528)
744872.Spica_2644				(PF09243)
744872.Spica_2829				(PF10974)
744872.Spica_0079				(PF05598)
744872.Spica_2225				(PF13528)
744872.Spica_0981				(PF10974)
744872.Spica_1922				(PF05598)
744872.Spica_1820				(PF01496)
744872.Spica_0999				(PF01875)
744872.Spica_1485				(PF02943)
744872.Spica_2022				PF03662
744872.Spica_1794				(PF01784)
744872.Spica_1570				(PF05598)
744872.Spica_2179				(PF05598)
744872.Spica_1814				(PF01813)
744872.Spica_1816				(PF16886)
744872.Spica_1960				(PF12646)
744872.Spica_0021				(PF01784)

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