Effective results for Rhodobacter sphaeroides 2.4.1 (eggnog40)

Summary

Number of putative secreted proteins: 22
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 8 eukaryotic-like domains, contained in 22 proteins (2 high, 20 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
272943.RSP_0290				(PF03209)	mitochondrial; (ER)
272943.RSP_0278				(PF03209)	ER
272943.RSP_1647				(PF01343)	ER
272943.RSP_2392				(PF07298)	ER
272943.RSP_3650				(PF01343)	ER
272943.RSP_3627				(PF01343)	(ER)
272943.RSP_1375				PF00777	mitochondrial
272943.RSP_0971				(PF07298)	ER
272943.RSP_2050				(PF13539)	(ER)
272943.RSP_3491				(PF13539)	ER
272943.RSP_0318				(PF07298)	(ER)
272943.RSP_3784				(PF01343)	(ER)
272943.RSP_2744				PF00777	mitochondrial
272943.RSP_1076				(PF01343)
272943.RSP_3246				(PF07930)
272943.RSP_1626				(PF13539)
272943.RSP_0230				(PF10462)
272943.RSP_3617				(PF13539)
272943.RSP_3636				(PF13539)
272943.RSP_3793				(PF14216)
272943.RSP_0315				(PF03209)
272943.RSP_3760				(PF13539)

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 = 1.5 (12/8 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=
==========================================================