Effective results for Leadbetterella byssophila DSM 17132 (eggnog40)

Summary

Number of putative secreted proteins: 107
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 29 eukaryotic-like domains, contained in 107 proteins (6 high, 101 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
649349.Lbys_1398				(PF14684) (PF03572)	(ER)
649349.Lbys_2608				(PF09112) (PF09113)	ER
649349.Lbys_3108				(PF14684) (PF03572)	(mitochondrial); mitochondrial
649349.Lbys_0715				(PF14684) (PF03572)	ER
649349.Lbys_1393				(PF03572)	ER
649349.Lbys_1862				PF15508	ER
649349.Lbys_1867				(PF07470)	ER
649349.Lbys_2117				(PF13287)	ER
649349.Lbys_3097				(PF13899)	ER
649349.Lbys_1110				(PF13174)	ER
649349.Lbys_0752				(PF03572)	ER
649349.Lbys_0373				(PF07168)	ER
649349.Lbys_3069				(PF03572)	ER
649349.Lbys_2589				(PF13174)	ER
649349.Lbys_2121				PF11717	ER
649349.Lbys_2120				(PF03572)	ER
649349.Lbys_1170				(PF00930)	ER
649349.Lbys_0222				(PF15071)	ER
649349.Lbys_2155				(PF16661)	mitochondrial
649349.Lbys_2150				(PF00930)	ER
649349.Lbys_0762				(PF03572)	ER
649349.Lbys_0303				(PF00930)	ER
649349.Lbys_2956				(PF13899)	ER
649349.Lbys_3201				(PF03572)	ER
649349.Lbys_3546				(PF13899)	ER
649349.Lbys_0932				(PF13174)	ER
649349.Lbys_0215				(PF00930)	ER
649349.Lbys_2160				(PF13287)	ER
649349.Lbys_3558				PF12248	ER
649349.Lbys_1622				(PF07470)	ER
649349.Lbys_3317				(PF13899)	ER
649349.Lbys_3316				(PF13899)	ER
649349.Lbys_0040				(PF07470)	ER
649349.Lbys_0698				(PF13174)	ER
649349.Lbys_0674				PF01731	ER
649349.Lbys_2353				(PF07470)	ER
649349.Lbys_2355				(PF07470)	ER
649349.Lbys_3593				(PF13899)	ER
649349.Lbys_1423				(PF00930)	ER
649349.Lbys_3379				(PF10142)	ER
649349.Lbys_0480				(PF00930)	ER
649349.Lbys_1450				(PF00930)	ER
649349.Lbys_3436				(PF03572)	ER
649349.Lbys_0010				(PF07470)	(ER)
649349.Lbys_2528				(PF07470)	ER
649349.Lbys_2670				(PF03572)	ER
649349.Lbys_0741				(PF01527)	(mitochondrial)
649349.Lbys_2487				(PF03572)	(ER)
649349.Lbys_1963				(PF01527)	(mitochondrial)
649349.Lbys_3446				(PF01715)	(mitochondrial)
649349.Lbys_3132				(PF01527)	(mitochondrial)
649349.Lbys_1001				(PF00078)
649349.Lbys_0020				(PF00078)
649349.Lbys_0021				(PF00078)
649349.Lbys_2606				(PF00078)
649349.Lbys_2615				(PF00078)
649349.Lbys_1758				(PF14307)
649349.Lbys_1800				(PF00078)
649349.Lbys_2445				(PF01527)	not used
649349.Lbys_2058				(PF13174)
649349.Lbys_2839				(PF13906)
649349.Lbys_0419				(PF01527)
649349.Lbys_0989				(PF01527)
649349.Lbys_2807				(PF00078)
649349.Lbys_2808				(PF00078)
649349.Lbys_0086				(PF00078)
649349.Lbys_0776				(PF01527)
649349.Lbys_0310				(PF16661)
649349.Lbys_0429				(PF01527)
649349.Lbys_3522				(PF10504)
649349.Lbys_1141				(PF00078)
649349.Lbys_2143				(PF00078)
649349.Lbys_2564				(PF00078)
649349.Lbys_1977				(PF00078)
649349.Lbys_1978				(PF00078)
649349.Lbys_2017				(PF00078)
649349.Lbys_1097				(PF01527)
649349.Lbys_1300				PF11735
649349.Lbys_1635				(PF13174)
649349.Lbys_0329				(PF01527)
649349.Lbys_0457				(PF16871)
649349.Lbys_0264				(PF00862)
649349.Lbys_0266				(PF01527)
649349.Lbys_1880				(PF00078)
649349.Lbys_3570				(PF16011)
649349.Lbys_2227				(PF01527)
649349.Lbys_2223				(PF01527)
649349.Lbys_2423				(PF01527)
649349.Lbys_3114				(PF00078)
649349.Lbys_0074				(PF00078)
649349.Lbys_3295				(PF01527)
649349.Lbys_0259				(PF01527)
649349.Lbys_3128				(PF14307)
649349.Lbys_1852				(PF01527)
649349.Lbys_2726				(PF01527)
649349.Lbys_2865				(PF05693)
649349.Lbys_1282				(PF01715)
649349.Lbys_1064				(PF01527)
649349.Lbys_2537				(PF01527)
649349.Lbys_3282				PF13854
649349.Lbys_2405				(PF01527)
649349.Lbys_2401				(PF01527)
649349.Lbys_0530				(PF01527)
649349.Lbys_0534				(PF01527)
649349.Lbys_0536				(PF01527)
649349.Lbys_1382				(PF00078)
649349.Lbys_2676				(PF00078)

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