Effective results for Psychromonas sp. CNPT3 (eggnog40)
Summary
Number of putative secreted proteins: 15
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 8 eukaryotic-like domains, contained in 15 proteins (2 high, 13 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 |
---|---|---|---|---|---|
314282.PCNPT3_09923 | (PF07819) | ER | |||
314282.PCNPT3_09089 | (PF05724) | (mitochondrial) | |||
314282.PCNPT3_09898 | (PF07819) | ER; (ER) | |||
314282.PCNPT3_02385 | (PF16889) | (mitochondrial) | |||
314282.PCNPT3_13478 | (PF16889) | (ER) | |||
314282.PCNPT3_09109 | (PF05724) | ||||
314282.PCNPT3_09873 | (PF07819) | ||||
314282.PCNPT3_12764 | PF01536 | ||||
314282.PCNPT3_13820 | PF14529 | ||||
314282.PCNPT3_03785 | (PF02317) | ||||
314282.PCNPT3_06683 | (PF03803) | ||||
314282.PCNPT3_10525 | (PF10354) | ||||
314282.PCNPT3_13731 | (PF16889) | not used | |||
314282.PCNPT3_09084 | (PF05724) | not used | |||
314282.PCNPT3_08635 | (PF02317) |
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 = 1.25 (10/8 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=
==========================================================
Estimated copy number = 1.25 (10/8 KEGG proteins)