Effective results for Caldicellulosiruptor saccharolyticus DSM 8903 (eggnog40)

Summary

Number of putative secreted proteins: 105
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 18 eukaryotic-like domains, contained in 105 proteins (34 high, 71 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
351627.Csac_1482				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_0807				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_2096				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_1980				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_2181				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_2323				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_0471				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_0652				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_0651				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_0099				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_0045				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_0318				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_1112				(PF05598) (PF01609)	(mitochondrial)
351627.Csac_0735				(PF04450)	ER
351627.Csac_2410				(PF00331)	ER
351627.Csac_0696				(PF00331)	ER
351627.Csac_0853				(PF04041)	(mitochondrial); mitochondrial
351627.Csac_1078				(PF00331)	ER
351627.Csac_0064				(PF01930)	(ER)
351627.Csac_0884				PF02183	ER
351627.Csac_0259				(PF04041)	(mitochondrial)
351627.Csac_0762				(PF04041)	mitochondrial
351627.Csac_1365				(PF01695)	(mitochondrial)
351627.Csac_0374				(PF06745)	(plastid)
351627.Csac_2396				PF06746 (PF01930)
351627.Csac_1014				(PF16661)	(plastid)
351627.Csac_0610				PF00872	plastid
351627.Csac_1696				(PF01909)	(mitochondrial)
351627.Csac_0289				PF00872
351627.Csac_0280				PF00872
351627.Csac_0353				PF00872
351627.Csac_1175				PF00872
351627.Csac_1179				PF00872
351627.Csac_1485				PF00872
351627.Csac_2610				PF00872
351627.Csac_0041				(PF01695)
351627.Csac_0160				PF00872
351627.Csac_2469				PF00872
351627.Csac_2599				PF00872
351627.Csac_2607				PF00872
351627.Csac_2606				(PF01695)
351627.Csac_0570				PF00872
351627.Csac_0375				(PF06745)
351627.Csac_1717				(PF01969)
351627.Csac_1718				(PF01969)
351627.Csac_1842				(PF16661)
351627.Csac_0541				PF00872
351627.Csac_1709				(PF01909)
351627.Csac_1452				(PF01930)
351627.Csac_0333				(PF01695)
351627.Csac_0480				PF00872
351627.Csac_0556				PF00872
351627.Csac_1738				(PF06745)
351627.Csac_1054				(PF09419)
351627.Csac_2388				PF00872
351627.Csac_2389				(PF01695)
351627.Csac_0769				(PF01633)
351627.Csac_0588				(PF01909)
351627.Csac_0123				(PF01909)
351627.Csac_0839				(PF01695)
351627.Csac_0052				PF00872
351627.Csac_1504				(PF07892)
351627.Csac_0011				(PF07892)
351627.Csac_1688				(PF01609)
351627.Csac_1689				(PF05598)
351627.Csac_0229				(PF01909)
351627.Csac_1667				(PF01909)
351627.Csac_1668				(PF01609)
351627.Csac_0911				(PF01909)
351627.Csac_1086				PF00872
351627.Csac_2744				PF00872
351627.Csac_0218				(PF01909)
351627.Csac_1672				(PF01909)
351627.Csac_2408				(PF00331)
351627.Csac_2405				(PF00331)
351627.Csac_0844				PF00872
351627.Csac_0842				PF00872
351627.Csac_0849				PF00872
351627.Csac_0204				(PF00331)
351627.Csac_0061				PF00872
351627.Csac_0060				(PF01695)
351627.Csac_0069				(PF05598)
351627.Csac_2217				PF00872
351627.Csac_0474				(PF01695)
351627.Csac_0656				(PF05598)
351627.Csac_0789				(PF01909)
351627.Csac_2511				(PF01609)
351627.Csac_1157				PF00872
351627.Csac_0319				(PF01930)
351627.Csac_2521				PF00872
351627.Csac_2527				(PF04041)
351627.Csac_0327				PF00872
351627.Csac_0324				PF00872
351627.Csac_0322				(PF01695)
351627.Csac_0258				(PF04041)
351627.Csac_1236				(PF01909)
351627.Csac_0335				PF00872
351627.Csac_0334				PF00872
351627.Csac_1592				(PF04423)
351627.Csac_2676				(PF01909)
351627.Csac_2105				(PF01695)
351627.Csac_0435				PF00872
351627.Csac_0296				(PF04041)
351627.Csac_0767				(PF01633)
351627.Csac_1586				(PF01909)

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