Effective results for Nitrosococcus watsonii C-113 (eggnog40)

Summary

Number of putative secreted proteins: 56
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 32 eukaryotic-like domains, contained in 56 proteins (6 high, 50 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
105559.Nwat_2177				(PF04561) (PF10385) (PF04565) (PF00562) (PF04563) (PF04560)
105559.Nwat_2165				(PF04561) (PF10385) (PF04565) (PF00562) (PF04563) (PF04560)
105559.Nwat_2176				(PF04998) (PF04983) (PF04997) (PF05000) (PF00623)
105559.Nwat_2164				(PF04998) (PF04983) (PF04997) (PF05000) (PF00623)
105559.Nwat_0843				(PF02931) PF02932	(mitochondrial)
105559.Nwat_2174				PF00177	(mitochondrial)
105559.Nwat_2175				(PF00164)	(mitochondrial)
105559.Nwat_2171				(PF00584)	ER
105559.Nwat_2168				PF00687	(mitochondrial)
105559.Nwat_2163				(PF00164)	(mitochondrial)
105559.Nwat_2162				PF00177	(mitochondrial)
105559.Nwat_2626				(PF00361)	ER
105559.Nwat_2622				(PF00361)	ER
105559.Nwat_2623				(PF00361)	ER
105559.Nwat_1137				(PF00361)	ER
105559.Nwat_1136				(PF00361)	ER
105559.Nwat_1229				(PF10142)	(ER)
105559.Nwat_2368				(PF03567)	(mitochondrial)
105559.Nwat_2364				(PF13469)	mitochondrial
105559.Nwat_2917				(PF06202)	(mitochondrial); mitochondrial
105559.Nwat_1138				(PF00361)	ER
105559.Nwat_0893				(PF13469)	(mitochondrial)
105559.Nwat_1911				(PF00361)	ER
105559.Nwat_1913				(PF00361)	ER
105559.Nwat_1912				(PF00361)	ER
105559.Nwat_0105				(PF13436)	ER
105559.Nwat_2183				(PF00584)	ER
105559.Nwat_2180				PF00687	(mitochondrial)
105559.Nwat_1168				(PF00361)	ER
105559.Nwat_1169				(PF00361)	ER
105559.Nwat_1170				(PF00361)	ER
105559.Nwat_0569				(PF00361)	(ER)
105559.Nwat_0568				(PF00361)	ER
105559.Nwat_0567				(PF00361)	ER
105559.Nwat_0703				PF06552	(mitochondrial)
105559.Nwat_1140				(PF00361)	ER
105559.Nwat_2169				(PF00298) (PF03946)
105559.Nwat_2378				(PF13469)	(ER)
105559.Nwat_1118				(PF03567)	(mitochondrial)
105559.Nwat_2181				(PF00298) (PF03946)
105559.Nwat_2178				(PF16320)
105559.Nwat_2179				(PF00466)
105559.Nwat_2167				(PF00466)
105559.Nwat_2166				(PF16320)
105559.Nwat_1120				(PF13469)
105559.Nwat_2371				(PF13469)
105559.Nwat_2375				(PF13469)
105559.Nwat_2376				(PF13469)
105559.Nwat_1004				(PF01991)
105559.Nwat_2365				(PF03567)
105559.Nwat_1119				(PF03567)
105559.Nwat_1288				(PF06202)
105559.Nwat_0797				(PF14701)
105559.Nwat_1315				(PF00305)
105559.Nwat_1579				(PF06202)
105559.Nwat_3123				(PF00862)

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