Effective results for Leptothrix cholodnii SP-6 (eggnog40)

Summary

Number of putative secreted proteins: 60
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 18 eukaryotic-like domains, contained in 60 proteins (1 high, 59 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
395495.Lcho_0048(PF02630)ER
395495.Lcho_3829(PF02630)(ER)
395495.Lcho_3941(PF00909)ER
395495.Lcho_2540(PF01012)(mitochondrial); mitochondrial
395495.Lcho_1450(PF02239)ER
395495.Lcho_0857(PF01012)(mitochondrial); mitochondrial
395495.Lcho_0070(PF02630)(mitochondrial)
395495.Lcho_3791(PF02630)(mitochondrial)
395495.Lcho_1194(PF01012)(mitochondrial); mitochondrial
395495.Lcho_1444(PF02239)ER
395495.Lcho_1442(PF02239)ER
395495.Lcho_1995(PF02630)ER
395495.Lcho_4373(PF00909)mitochondrial; (mitochondrial)
395495.Lcho_3598(PF01012)(mitochondrial); mitochondrial
395495.Lcho_1386(PF13480)mitochondrial
395495.Lcho_0650(PF02630)ER
395495.Lcho_2647(PF00909)ER
395495.Lcho_3891(PF02630)ER
395495.Lcho_3892(PF02239)ER
395495.Lcho_0663(PF00909)ER
395495.Lcho_0157(PF00909)ER
395495.Lcho_0313(PF00925) (PF12471)
395495.Lcho_2720(PF13480)(ER)
395495.Lcho_0858(PF00766) (PF01012)
395495.Lcho_1195(PF00766) (PF01012)
395495.Lcho_3599(PF00766) (PF01012)
395495.Lcho_2539(PF00766) (PF01012)
395495.Lcho_1369(PF00766) (PF01012)
395495.Lcho_3890(PF02630)(ER)
395495.Lcho_0163(PF00766) (PF01012)
395495.Lcho_0162(PF01012)(mitochondrial)
395495.Lcho_2627(PF02630)
395495.Lcho_2489(PF00925)
395495.Lcho_4303(PF09298)
395495.Lcho_1179(PF13480)
395495.Lcho_0314(PF07958)
395495.Lcho_2793(PF05706)
395495.Lcho_0432(PF09298)
395495.Lcho_2360(PF13480)
395495.Lcho_1452(PF13429)
395495.Lcho_0855(PF00925)
395495.Lcho_2996(PF12513)
395495.Lcho_1192(PF05187)
395495.Lcho_2161(PF00925)
395495.Lcho_0017(PF13429)
395495.Lcho_0709(PF09298)
395495.Lcho_2257PF16190
395495.Lcho_1251(PF10013)not used
395495.Lcho_3113(PF02239)
395495.Lcho_2069(PF05187)
395495.Lcho_1399(PF13480)
395495.Lcho_2044(PF09298)
395495.Lcho_3657(PF16155)
395495.Lcho_1368(PF01012)
395495.Lcho_2935(PF00925)
395495.Lcho_1371(PF05187)
395495.Lcho_0158(PF05187)
395495.Lcho_0571(PF13281)
395495.Lcho_3070(PF13480)
395495.Lcho_3071(PF13480)

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 = 3.0 (24/8 KEGG proteins)

Individual results for each secretion system

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