Effective results for Herbaspirillum seropedicae SmR1 (eggnog40)

Summary

Number of putative secreted proteins: 158
- Predicted by T4SEpre: 92
- Predicted by EffectiveELD: 10 eukaryotic-like domains, contained in 86 proteins (42 high, 44 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): (Type IV)

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

ProteinEffectiveT3EffectiveCCBDT4SEpreEffectiveELDPredotar
757424.Hsero_2726+PF12729 (PF00015)(mitochondrial); mitochondrial
757424.Hsero_3032+PF12729 (PF00015)(ER); (mitochondrial)
757424.Hsero_4656+PF12729 (PF00015)ER
757424.Hsero_0538+PF12729 (PF00015)ER
757424.Hsero_3966+PF12729 (PF00015)ER
757424.Hsero_2619PF12729 (PF00015)(ER)
757424.Hsero_4615PF12729 (PF00015)(ER); (mitochondrial)
757424.Hsero_0455PF12729 (PF00015)ER
757424.Hsero_1659+(PF13539)ER
757424.Hsero_1251PF12729 (PF00015)ER
757424.Hsero_3434PF12729 (PF00015)ER
757424.Hsero_2914PF12729 (PF00015)ER; (ER)
757424.Hsero_2915PF12729 (PF00015)ER
757424.Hsero_2723PF12729 (PF00015)ER
757424.Hsero_0720PF12729 (PF00015)ER
757424.Hsero_0394PF12729 (PF00015)ER
757424.Hsero_4025PF12729 (PF00015)ER
757424.Hsero_0030PF12729 (PF00015)ER
757424.Hsero_2671PF12729 (PF00015)ER
757424.Hsero_2662PF12729 (PF00015)ER
757424.Hsero_2299PF12729 (PF00015)ER
757424.Hsero_1361PF12729 (PF00015)(ER)
757424.Hsero_3124PF12729 (PF00015)ER
757424.Hsero_3022PF12729 (PF00015)ER
757424.Hsero_1095PF12729 (PF00015)ER
757424.Hsero_4780PF12729 (PF00015)ER
757424.Hsero_1336PF12729 (PF00015)ER
757424.Hsero_4643PF12729 (PF00015)ER; (ER)
757424.Hsero_1141PF12729 (PF00015)(mitochondrial)
757424.Hsero_1457PF12729 (PF00015)ER
757424.Hsero_3943PF12729 (PF00015)ER; (ER)
757424.Hsero_0623+(PF00015)ER
757424.Hsero_1683PF12729 (PF00015)ER
757424.Hsero_1262PF12729 (PF00015)ER; mitochondrial
757424.Hsero_3755PF12729 (PF00015)ER; mitochondrial
757424.Hsero_4538PF12729 (PF00015)ER; (ER)
757424.Hsero_2577+mitochondrial
757424.Hsero_1878+ER
757424.Hsero_4543(PF00015)ER
757424.Hsero_4183+ER
757424.Hsero_2606(PF16387)ER
757424.Hsero_3730PF12729 (PF00015)(mitochondrial)
757424.Hsero_4609(PF00015)ER
757424.Hsero_0451+ER
757424.Hsero_1255+(ER)
757424.Hsero_1250(PF00015)ER
757424.Hsero_1252(PF00015)ER
757424.Hsero_4700(PF06884)(ER)
757424.Hsero_4019(PF00015)ER
757424.Hsero_2438(PF00015)mitochondrial
757424.Hsero_0139+(mitochondrial)
757424.Hsero_4174+ER
757424.Hsero_4371+ER; (mitochondrial)
757424.Hsero_0382+(mitochondrial)
757424.Hsero_3523(PF00015)ER
757424.Hsero_3700+mitochondrial
757424.Hsero_4388+ER
757424.Hsero_1730(PF07819)(mitochondrial)
757424.Hsero_1288PF12729 (PF00015)(mitochondrial)
757424.Hsero_1515(PF13436)ER; (ER)
757424.Hsero_0259(PF00015)ER
757424.Hsero_4730+ER
757424.Hsero_4026(PF13539)ER
757424.Hsero_0032+(mitochondrial)
757424.Hsero_1729+ER
757424.Hsero_4610+ER
757424.Hsero_4558+ER
757424.Hsero_3334+mitochondrial
757424.Hsero_1112+ER
757424.Hsero_1197+ER
757424.Hsero_2474PF12729ER
757424.Hsero_2473(PF00015)ER
757424.Hsero_2270+ER
757424.Hsero_0165+ER
757424.Hsero_0761(PF13539)ER
757424.Hsero_1363(PF00015)(ER)
757424.Hsero_0835(PF00015)(mitochondrial); plastid
757424.Hsero_4046+(mitochondrial)
757424.Hsero_4672+(ER)
757424.Hsero_1794+(mitochondrial)
757424.Hsero_0900+(mitochondrial)
757424.Hsero_0915+ER
757424.Hsero_3488(PF00015)ER
757424.Hsero_1302(PF00015)ER
757424.Hsero_3148(PF00015)ER
757424.Hsero_0372+(mitochondrial)
757424.Hsero_3234(PF00015)ER
757424.Hsero_0976(PF00015)ER
757424.Hsero_3773(PF00015)ER
757424.Hsero_4644(PF00015)ER
757424.Hsero_2019(PF00015)mitochondrial
757424.Hsero_3545(PF00015)mitochondrial
757424.Hsero_2164(PF00015)ER
757424.Hsero_3160(PF00015)ER
757424.Hsero_4250+ER
757424.Hsero_0138+(mitochondrial)
757424.Hsero_2176+(mitochondrial)
757424.Hsero_1556PF12729 (PF00015)
757424.Hsero_1708(PF00015)(ER)
757424.Hsero_4039+(ER)
757424.Hsero_0733+(ER)
757424.Hsero_0787+(plastid)
757424.Hsero_4595PF12729 (PF00015)
757424.Hsero_1418+(ER)
757424.Hsero_2859+(plastid)
757424.Hsero_0183+
757424.Hsero_1129+
757424.Hsero_1698(PF00015)
757424.Hsero_1696+
757424.Hsero_2976+
757424.Hsero_3428+
757424.Hsero_2366+
757424.Hsero_3648+
757424.Hsero_4424PF16994
757424.Hsero_4421PF01762
757424.Hsero_4422PF16994
757424.Hsero_4280+
757424.Hsero_1847+
757424.Hsero_2635+
757424.Hsero_3720(PF00015)
757424.Hsero_0286+
757424.Hsero_0448(PF00015)
757424.Hsero_2281+
757424.Hsero_4229+
757424.Hsero_2625+
757424.Hsero_3095+
757424.Hsero_0472+
757424.Hsero_1706(PF00015)
757424.Hsero_2770+
757424.Hsero_3063+
757424.Hsero_3840(PF00015)
757424.Hsero_0736+
757424.Hsero_3604+
757424.Hsero_4134+
757424.Hsero_3072(PF00015)
757424.Hsero_0929(PF13816)
757424.Hsero_4581+
757424.Hsero_0024(PF07819)
757424.Hsero_0021(PF07819)
757424.Hsero_1195+
757424.Hsero_0110+
757424.Hsero_2667+
757424.Hsero_0514(PF00015)
757424.Hsero_0836+
757424.Hsero_4322(PF07819)
757424.Hsero_4105+
757424.Hsero_2227+
757424.Hsero_0229(PF13539)
757424.Hsero_0173+
757424.Hsero_2194+
757424.Hsero_0913+
757424.Hsero_4441+
757424.Hsero_3923+
757424.Hsero_4173+
757424.Hsero_2532+
757424.Hsero_1897+
757424.Hsero_1330(PF00015)
757424.Hsero_2024+

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: YES (FDR = 7.2 %)
    Estimated copy number = 0.0 (0/10 KEGG proteins)
  • Functional Type VI secretion system: NO (FDR = 7.7 %)

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