Effective results for Rhodothermus marinus DSM 4252 (eggnog40)

Summary

Number of putative secreted proteins: 67
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 27 eukaryotic-like domains, contained in 67 proteins (5 high, 62 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
518766.Rmar_0260				(PF02012) (PF13860)	ER
518766.Rmar_1530				(PF07721)	ER
518766.Rmar_2092				(PF04253)	ER
518766.Rmar_1760				(PF07593)	ER
518766.Rmar_2053				(PF13582)	ER
518766.Rmar_1484				(PF13860)	ER
518766.Rmar_1165				(PF14592)	ER
518766.Rmar_1747				(PF07593)	ER
518766.Rmar_1004				(PF00094)	(mitochondrial)
518766.Rmar_1759				(PF07593)	ER
518766.Rmar_1751				(PF07593)	ER
518766.Rmar_1753				(PF07593)	ER
518766.Rmar_1752				(PF07721)	ER
518766.Rmar_0524				(PF13860)	ER
518766.Rmar_1437				(PF07721)	ER
518766.Rmar_1438				(PF07593)	ER
518766.Rmar_2471				(PF13860)	ER
518766.Rmar_2495				(PF01909)	(mitochondrial)
518766.Rmar_1428				(PF07593)	ER
518766.Rmar_0721				(PF13860)	ER
518766.Rmar_1386				(PF14592)	ER
518766.Rmar_0099				(PF13582)	ER
518766.Rmar_2727				(PF13860)	ER
518766.Rmar_0910				(PF02012)	ER
518766.Rmar_0449				(PF13528)	mitochondrial
518766.Rmar_1403				(PF12038)	(mitochondrial); (plastid)
518766.Rmar_0119				(PF01204)	ER
518766.Rmar_1071				(PF13860)	ER
518766.Rmar_1988				(PF01927)	(mitochondrial)
518766.Rmar_2017				(PF01909)	(mitochondrial)
518766.Rmar_1999				(PF01909)
518766.Rmar_0131				(PF07798)
518766.Rmar_0551				(PF01909)
518766.Rmar_0557				PF00261
518766.Rmar_2571				(PF01909)
518766.Rmar_0548				(PF01909)
518766.Rmar_2563				(PF13528)
518766.Rmar_2147				(PF01909)
518766.Rmar_1814				(PF07798)
518766.Rmar_0782				(PF13860)
518766.Rmar_1563				(PF01909)
518766.Rmar_1766				(PF01909)
518766.Rmar_1646				(PF01909)
518766.Rmar_0363				(PF04041)
518766.Rmar_0362				(PF04041)
518766.Rmar_1772				(PF01927)
518766.Rmar_1774				(PF01204)
518766.Rmar_0191				(PF11969)
518766.Rmar_0503				(PF01204)
518766.Rmar_0502				PF09488
518766.Rmar_2440				(PF04041)
518766.Rmar_0239				(PF05189)
518766.Rmar_2074				(PF12640)
518766.Rmar_2669				(PF01909)
518766.Rmar_2475				PF16575
518766.Rmar_1731				PF04184
518766.Rmar_2647				(PF03959)
518766.Rmar_2734				(PF01909)
518766.Rmar_1257				(PF04423)
518766.Rmar_1713				(PF02679)
518766.Rmar_1394				PF08961
518766.Rmar_2527				(PF04098)
518766.Rmar_0022				(PF02679)
518766.Rmar_2515				(PF01927)
518766.Rmar_1188				(PF01909)
518766.Rmar_2615				(PF04041)
518766.Rmar_2614				(PF04041)

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