Effective results for Rhodobacteraceae bacterium HTCC2083 (eggnog40)

Summary

Number of putative secreted proteins: 103
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 19 eukaryotic-like domains, contained in 103 proteins (22 high, 81 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
314270.RB2083_3775				(PF16350) (PF01571) (PF08669)	ER; (ER)
314270.RB2083_4087				(PF01571) (PF08669)	mitochondrial; (mitochondrial)
314270.RB2083_3307				(PF16350) (PF01571) (PF08669)	(ER)
314270.RB2083_1139				(PF01571) (PF08669)	(mitochondrial)
314270.RB2083_1674				(PF16350) (PF01571) (PF08669)
314270.RB2083_655				(PF16350) (PF01571) (PF08669)
314270.RB2083_2289				(PF03209)	(mitochondrial)
314270.RB2083_34				(PF13704)	(mitochondrial)
314270.RB2083_1371				(PF07700)	(ER); ER
314270.RB2083_1973				(PF16350) (PF01571) (PF08669)
314270.RB2083_1963				(PF03209)	ER
314270.RB2083_2935				(PF16350) (PF01571) (PF08669)
314270.RB2083_1340				(PF14248)	ER
314270.RB2083_552				(PF02460)	ER
314270.RB2083_3069				(PF02485)	(mitochondrial)
314270.RB2083_3060				(PF14248)	ER
314270.RB2083_1002				(PF05023)	ER
314270.RB2083_598				(PF03209)	ER
314270.RB2083_1120				(PF13704)	mitochondrial
314270.RB2083_2263				(PF13276)	(ER); ER
314270.RB2083_1672				(PF13704)	(ER)
314270.RB2083_1998				PF13683 (PF13276)
314270.RB2083_1186				PF13683 (PF13276)
314270.RB2083_1450				(PF13704)	(mitochondrial)
314270.RB2083_3364				(PF01571) (PF08669)
314270.RB2083_3698				(PF12681)	(mitochondrial)
314270.RB2083_1737				(PF01571) (PF08669)
314270.RB2083_2429				PF13683 (PF13276)
314270.RB2083_626				PF13683 (PF13276)
314270.RB2083_3489				PF13683 (PF13276)
314270.RB2083_2946				PF13683 (PF13276)
314270.RB2083_3157				PF13683 (PF13276)
314270.RB2083_3441				PF13683 (PF13276)
314270.RB2083_3033				(PF01571) (PF08669)
314270.RB2083_3039				PF13683 (PF13276)
314270.RB2083_2156				PF13683 (PF13276)
314270.RB2083_2026				PF13683 (PF13276)
314270.RB2083_1163				PF13683 (PF13276)
314270.RB2083_237				PF13683 (PF13276)
314270.RB2083_909				PF13683 (PF13276)
314270.RB2083_2216				PF13683 (PF13276)
314270.RB2083_2102				(PF01571) (PF08669)
314270.RB2083_51				PF13683 (PF13276)
314270.RB2083_4059				PF13683 (PF13276)
314270.RB2083_597				(PF01571) (PF08669)
314270.RB2083_9				PF13683 (PF13276)
314270.RB2083_99				(PF01571) (PF08669)
314270.RB2083_1682				(PF01571) (PF08669)
314270.RB2083_2642				PF13683 (PF13276)
314270.RB2083_630				(PF09585)	(mitochondrial)
314270.RB2083_1473				(PF01527)
314270.RB2083_2523				(PF02371)
314270.RB2083_1993				(PF02371)
314270.RB2083_2181				(PF01527)
314270.RB2083_1526				(PF13660)
314270.RB2083_3104				(PF13660)
314270.RB2083_3818				(PF02371)
314270.RB2083_402				(PF01527)
314270.RB2083_4104				(PF09585)
314270.RB2083_2197				(PF01527)
314270.RB2083_1559				PF13683
314270.RB2083_2776				(PF02371)
314270.RB2083_290				(PF12681)
314270.RB2083_3829				(PF13660)
314270.RB2083_1946				(PF01527)
314270.RB2083_1948				(PF01527)
314270.RB2083_1399				(PF01527)
314270.RB2083_2716				(PF01527)
314270.RB2083_2397				(PF02485)
314270.RB2083_381				(PF02371)
314270.RB2083_4133				(PF02371)
314270.RB2083_624				(PF01527)
314270.RB2083_2143				(PF11927)
314270.RB2083_390				(PF10013)	not used
314270.RB2083_570				(PF01527)
314270.RB2083_1605				(PF01527)
314270.RB2083_3732				(PF01527)
314270.RB2083_2028				(PF01527)
314270.RB2083_3865				(PF01527)
314270.RB2083_1169				(PF07700)
314270.RB2083_2539				(PF01527)
314270.RB2083_2538				(PF02371)
314270.RB2083_491				(PF01571)
314270.RB2083_555				(PF01527)
314270.RB2083_1621				(PF02371)
314270.RB2083_480				(PF02371)
314270.RB2083_2692				(PF11927)
314270.RB2083_3673				(PF02371)
314270.RB2083_226				(PF02371)
314270.RB2083_829				PF13683
314270.RB2083_918				(PF02371)
314270.RB2083_2449				(PF01527)
314270.RB2083_43				(PF13704)
314270.RB2083_3337				(PF01527)
314270.RB2083_4199				(PF01527)
314270.RB2083_2096				(PF01527)
314270.RB2083_2465				(PF03209)
314270.RB2083_2469				(PF02371)
314270.RB2083_2640				(PF01527)
314270.RB2083_2880				(PF01527)
314270.RB2083_876				(PF02371)
314270.RB2083_898				(PF02371)
314270.RB2083_4200				PF13683

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