Effective results for Shewanella amazonensis SB2B (eggnog40)

Summary

Number of putative secreted proteins: 25
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 10 eukaryotic-like domains, contained in 25 proteins (2 high, 23 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)

ProteinEffectiveT3EffectiveCCBDT4SEpreEffectiveELDPredotar
326297.Sama_1541PF02520mitochondrial
326297.Sama_0293(PF07971)ER
326297.Sama_0151(PF02225)ER
326297.Sama_2100(PF02225)ER
326297.Sama_0300(PF03644)ER
326297.Sama_0304(PF07971)ER
326297.Sama_1876(PF02225)ER
326297.Sama_0288(PF07971)ER
326297.Sama_0289(PF07971)(ER)
326297.Sama_1416(PF05548)ER
326297.Sama_2696(PF02225)ER
326297.Sama_3313(PF02225)(ER)
326297.Sama_2413(PF02225)ER
326297.Sama_3108(PF08487)(ER)
326297.Sama_2185(PF02225)ER
326297.Sama_0744(PF02225)ER
326297.Sama_0563(PF07971)ER; (ER)
326297.Sama_0564(PF07971)ER
326297.Sama_0555(PF02225)ER
326297.Sama_0635(PF02225)
326297.Sama_0297(PF16317)
326297.Sama_3181(PF16983)
326297.Sama_2003(PF08487)
326297.Sama_0787(PF00026)
326297.Sama_1962PF01536

Detailed merged results for each protein sequence

Individual results for each protein sequence

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 = 0.5 (4/8 KEGG proteins)

Individual results for each secretion system

Parameters:

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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=
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