Effective results for Nitrobacter winogradskyi Nb-255 (eggnog40)
Summary
Number of putative secreted proteins: 237
- Predicted by T4SEpre: 82
- Predicted by EffectiveELD: 19 eukaryotic-like domains, contained in 168 proteins (110 high, 58 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)
| Protein | EffectiveT3 | EffectiveCCBD | T4SEpre | EffectiveELD | Predotar |
|---|---|---|---|---|---|
| 323098.Nwi_0552 | + | (mitochondrial) | |||
| 323098.Nwi_2777 | + | ER | |||
| 323098.Nwi_2607 | + | mitochondrial | |||
| 323098.Nwi_3099 | PF13565 PF00665 | (mitochondrial) | |||
| 323098.Nwi_2546 | + | ER | |||
| 323098.Nwi_2021 | + | ER | |||
| 323098.Nwi_2161 | + | (mitochondrial); mitochondrial | |||
| 323098.Nwi_0725 | + | mitochondrial | |||
| 323098.Nwi_0618 | + | mitochondrial | |||
| 323098.Nwi_2578 | + | (mitochondrial) | |||
| 323098.Nwi_2119 | PF01527 | mitochondrial | |||
| 323098.Nwi_2597 | + | ER | |||
| 323098.Nwi_1720 | + | (mitochondrial) | |||
| 323098.Nwi_0527 | + | (mitochondrial) | |||
| 323098.Nwi_2630 | (PF11162) | ER | |||
| 323098.Nwi_0072 | + | (mitochondrial) | |||
| 323098.Nwi_2901 | (PF11162) | ER | |||
| 323098.Nwi_2011 | + | ER | |||
| 323098.Nwi_0653 | + | mitochondrial | |||
| 323098.Nwi_2332 | + | mitochondrial; (mitochondrial) | |||
| 323098.Nwi_2489 | + | ER | |||
| 323098.Nwi_2794 | + | mitochondrial | |||
| 323098.Nwi_1869 | (PF11162) | ER | |||
| 323098.Nwi_1865 | + | (mitochondrial) | |||
| 323098.Nwi_1584 | + | mitochondrial | |||
| 323098.Nwi_2786 | + | (mitochondrial) | |||
| 323098.Nwi_1674 | + | ER | |||
| 323098.Nwi_2077 | PF00665 | (mitochondrial) | |||
| 323098.Nwi_0235 | + | ER | |||
| 323098.Nwi_2317 | (PF11162) | mitochondrial | |||
| 323098.Nwi_2682 | + | ER | |||
| 323098.Nwi_0751 | (PF04588) | ER | |||
| 323098.Nwi_1539 | + | ER | |||
| 323098.Nwi_0355 | + | (mitochondrial); mitochondrial | |||
| 323098.Nwi_1519 | + | ER | |||
| 323098.Nwi_2735 | + | (mitochondrial) | |||
| 323098.Nwi_0005 | (PF14295) | mitochondrial | |||
| 323098.Nwi_1573 | PF01527 | mitochondrial | |||
| 323098.Nwi_2710 | + | ER | |||
| 323098.Nwi_2706 | + | mitochondrial; (mitochondrial) | |||
| 323098.Nwi_0968 | PF12142 | mitochondrial; (mitochondrial) | |||
| 323098.Nwi_0954 | (PF13358) | (mitochondrial) | |||
| 323098.Nwi_0953 | + | (ER) | |||
| 323098.Nwi_2941 | PF13565 PF00665 | ||||
| 323098.Nwi_1945 | PF13565 PF00665 | ||||
| 323098.Nwi_1016 | (PF13358) | (mitochondrial) | |||
| 323098.Nwi_1018 | PF13565 PF00665 | ||||
| 323098.Nwi_1492 | PF13565 PF00665 | ||||
| 323098.Nwi_3086 | PF13565 PF00665 | ||||
| 323098.Nwi_1717 | PF00665 | (plastid) | |||
| 323098.Nwi_0660 | PF13565 PF00665 | ||||
| 323098.Nwi_2082 | PF13565 PF00665 | ||||
| 323098.Nwi_2918 | PF00665 | (plastid) | |||
| 323098.Nwi_2917 | PF00665 | (plastid) | |||
| 323098.Nwi_2358 | PF13565 PF00665 | ||||
| 323098.Nwi_2135 | PF13565 PF00665 | ||||
| 323098.Nwi_1932 | PF13565 PF00665 | ||||
| 323098.Nwi_0865 | PF13565 PF00665 | ||||
| 323098.Nwi_0640 | PF13565 PF00665 | ||||
| 323098.Nwi_2407 | PF13565 PF00665 | ||||
| 323098.Nwi_0872 | PF13565 PF00665 | ||||
| 323098.Nwi_0870 | PF13565 PF00665 | ||||
| 323098.Nwi_0254 | PF13565 PF00665 | ||||
| 323098.Nwi_2665 | PF13565 PF00665 | ||||
| 323098.Nwi_2921 | (PF13358) | (mitochondrial) | |||
| 323098.Nwi_2329 | PF13565 PF00665 | ||||
| 323098.Nwi_2818 | PF00665 | (plastid) | |||
| 323098.Nwi_2819 | PF13565 PF00665 | ||||
| 323098.Nwi_2674 | PF13565 PF00665 | ||||
| 323098.Nwi_0308 | PF00665 | (plastid) | |||
| 323098.Nwi_1097 | PF00665 | (plastid) | |||
| 323098.Nwi_2866 | PF13565 PF00665 | ||||
| 323098.Nwi_2865 | PF13565 PF00665 | ||||
| 323098.Nwi_2260 | (PF13358) | (mitochondrial) | |||
| 323098.Nwi_1790 | (PF04588) | ER; not used | |||
| 323098.Nwi_2047 | PF13565 PF00665 | ||||
| 323098.Nwi_2879 | PF13565 PF00665 | ||||
| 323098.Nwi_0328 | + | (mitochondrial) | |||
| 323098.Nwi_3106 | PF13565 PF00665 | ||||
| 323098.Nwi_1986 | (PF00101) | (mitochondrial) | |||
| 323098.Nwi_0366 | PF00665 | (plastid) | |||
| 323098.Nwi_2433 | PF13565 PF00665 | ||||
| 323098.Nwi_2437 | (PF13358) | (mitochondrial) | |||
| 323098.Nwi_1291 | (PF13358) | (mitochondrial) | |||
| 323098.Nwi_1293 | PF00665 | (plastid) | |||
| 323098.Nwi_1296 | PF00665 | (plastid) | |||
| 323098.Nwi_1299 | PF13565 PF00665 | ||||
| 323098.Nwi_3112 | PF13565 PF00665 | ||||
| 323098.Nwi_2225 | PF00665 | (plastid) | |||
| 323098.Nwi_1999 | (PF13358) | (mitochondrial) | |||
| 323098.Nwi_0976 | (PF13358) | (mitochondrial) | |||
| 323098.Nwi_0481 | PF00665 | (plastid) | |||
| 323098.Nwi_2899 | PF00665 | (plastid) | |||
| 323098.Nwi_1964 | PF13565 PF00665 | ||||
| 323098.Nwi_2411 | (PF13358) | (mitochondrial) | |||
| 323098.Nwi_2099 | PF13565 PF00665 | ||||
| 323098.Nwi_1541 | PF13565 PF00665 | ||||
| 323098.Nwi_1143 | PF13565 PF00665 | ||||
| 323098.Nwi_0147 | (PF12762) | (plastid) | |||
| 323098.Nwi_0869 | PF01527 | ||||
| 323098.Nwi_2953 | + | ||||
| 323098.Nwi_2952 | (PF00011) | ||||
| 323098.Nwi_0820 | (PF13481) | ||||
| 323098.Nwi_1803 | + | ||||
| 323098.Nwi_1395 | PF13384 | ||||
| 323098.Nwi_1396 | (PF13358) | ||||
| 323098.Nwi_1156 | (PF12762) | ||||
| 323098.Nwi_1157 | (PF13358) | ||||
| 323098.Nwi_1158 | PF13384 | ||||
| 323098.Nwi_2940 | (PF00011) | ||||
| 323098.Nwi_2942 | PF01527 | ||||
| 323098.Nwi_2948 | PF13384 | ||||
| 323098.Nwi_2949 | (PF13358) | ||||
| 323098.Nwi_1944 | PF01527 | ||||
| 323098.Nwi_0541 | (PF01697) | ||||
| 323098.Nwi_1017 | PF01527 | ||||
| 323098.Nwi_0944 | + | ||||
| 323098.Nwi_1493 | (PF13481) | ||||
| 323098.Nwi_1491 | PF01527 | ||||
| 323098.Nwi_0838 | PF00665 | ||||
| 323098.Nwi_0833 | + | ||||
| 323098.Nwi_3087 | PF01527 | ||||
| 323098.Nwi_2371 | PF13384 | ||||
| 323098.Nwi_2370 | (PF13358) | ||||
| 323098.Nwi_1712 | + | ||||
| 323098.Nwi_2117 | (PF00011) | ||||
| 323098.Nwi_2118 | (PF00011) | ||||
| 323098.Nwi_0530 | + | ||||
| 323098.Nwi_1486 | (PF13481) | ||||
| 323098.Nwi_0197 | + | ||||
| 323098.Nwi_0269 | + | ||||
| 323098.Nwi_2100 | PF01527 | ||||
| 323098.Nwi_2103 | PF13384 | ||||
| 323098.Nwi_2104 | (PF13358) | ||||
| 323098.Nwi_2107 | PF13384 | ||||
| 323098.Nwi_2108 | (PF13358) | ||||
| 323098.Nwi_2030 | PF13384 | ||||
| 323098.Nwi_0851 | (PF13358) | ||||
| 323098.Nwi_0852 | PF13384 | ||||
| 323098.Nwi_2081 | PF01527 | ||||
| 323098.Nwi_2357 | PF01527 | ||||
| 323098.Nwi_2820 | PF01527 | ||||
| 323098.Nwi_2136 | PF01527 | ||||
| 323098.Nwi_1931 | PF01527 | ||||
| 323098.Nwi_0462 | + | ||||
| 323098.Nwi_1116 | (PF00011) | ||||
| 323098.Nwi_1115 | (PF00011) | ||||
| 323098.Nwi_0866 | PF01527 | ||||
| 323098.Nwi_0887 | PF06597 | ||||
| 323098.Nwi_0886 | PF06597 | ||||
| 323098.Nwi_0885 | PF06597 | ||||
| 323098.Nwi_0884 | PF06597 | ||||
| 323098.Nwi_1206 | + | ||||
| 323098.Nwi_0087 | + | ||||
| 323098.Nwi_0081 | (PF12762) | ||||
| 323098.Nwi_2839 | PF00665 | ||||
| 323098.Nwi_2120 | PF00665 | ||||
| 323098.Nwi_2015 | (PF13481) | ||||
| 323098.Nwi_0871 | PF01527 | ||||
| 323098.Nwi_0659 | PF01527 | ||||
| 323098.Nwi_0654 | (PF13358) | ||||
| 323098.Nwi_0655 | PF13384 | ||||
| 323098.Nwi_0890 | + | ||||
| 323098.Nwi_1278 | (PF12762) | ||||
| 323098.Nwi_2936 | (PF00011) | ||||
| 323098.Nwi_2939 | (PF00011) | ||||
| 323098.Nwi_2330 | PF01527 | ||||
| 323098.Nwi_1726 | + | ||||
| 323098.Nwi_0483 | (PF13358) | ||||
| 323098.Nwi_2060 | (PF13358) | ||||
| 323098.Nwi_2666 | PF01527 | ||||
| 323098.Nwi_2468 | + | ||||
| 323098.Nwi_0314 | + | ||||
| 323098.Nwi_1314 | PF13384 | ||||
| 323098.Nwi_1315 | (PF13358) | ||||
| 323098.Nwi_2928 | (PF00101) | ||||
| 323098.Nwi_2259 | + | ||||
| 323098.Nwi_1077 | + | ||||
| 323098.Nwi_1673 | + | ||||
| 323098.Nwi_2673 | PF01527 | ||||
| 323098.Nwi_1785 | + | ||||
| 323098.Nwi_1258 | + | ||||
| 323098.Nwi_0782 | PF00665 | ||||
| 323098.Nwi_0783 | PF01527 | ||||
| 323098.Nwi_0232 | (PF13358) | ||||
| 323098.Nwi_0233 | PF13384 | ||||
| 323098.Nwi_1108 | + | ||||
| 323098.Nwi_2867 | PF01527 | ||||
| 323098.Nwi_2864 | PF01527 | ||||
| 323098.Nwi_2046 | PF01527 | ||||
| 323098.Nwi_1084 | + | ||||
| 323098.Nwi_1086 | (PF01442) | ||||
| 323098.Nwi_0759 | + | ||||
| 323098.Nwi_2059 | PF13384 | ||||
| 323098.Nwi_0211 | (PF00011) | ||||
| 323098.Nwi_1889 | + | ||||
| 323098.Nwi_2847 | (PF13358) | ||||
| 323098.Nwi_2849 | (PF13358) | ||||
| 323098.Nwi_2848 | PF13384 | ||||
| 323098.Nwi_3008 | (PF13358) | ||||
| 323098.Nwi_3007 | PF13384 | ||||
| 323098.Nwi_2428 | + | ||||
| 323098.Nwi_0776 | + | ||||
| 323098.Nwi_2029 | (PF13358) | ||||
| 323098.Nwi_3105 | PF01527 | ||||
| 323098.Nwi_2850 | PF00665 | ||||
| 323098.Nwi_2434 | PF01527 | ||||
| 323098.Nwi_0342 | + | ||||
| 323098.Nwi_1298 | PF01527 | ||||
| 323098.Nwi_2729 | + | ||||
| 323098.Nwi_3117 | + | ||||
| 323098.Nwi_3113 | PF01527 | ||||
| 323098.Nwi_3118 | PF07460 | ||||
| 323098.Nwi_1387 | + | ||||
| 323098.Nwi_2880 | PF01527 | ||||
| 323098.Nwi_1629 | (PF13481) | ||||
| 323098.Nwi_1623 | + | ||||
| 323098.Nwi_2408 | PF01527 | ||||
| 323098.Nwi_0251 | + | ||||
| 323098.Nwi_1572 | PF00665 | ||||
| 323098.Nwi_1523 | + | ||||
| 323098.Nwi_0712 | + | ||||
| 323098.Nwi_0717 | (PF10162) | ||||
| 323098.Nwi_0718 | + | ||||
| 323098.Nwi_0482 | PF13384 | ||||
| 323098.Nwi_0631 | + | ||||
| 323098.Nwi_1967 | PF13384 | ||||
| 323098.Nwi_1965 | PF01527 | ||||
| 323098.Nwi_1968 | (PF13358) | ||||
| 323098.Nwi_0363 | (PF13358) | ||||
| 323098.Nwi_0817 | PF13384 | ||||
| 323098.Nwi_0364 | PF00292 | ||||
| 323098.Nwi_0965 | + | ||||
| 323098.Nwi_0707 | (PF13358) | ||||
| 323098.Nwi_0708 | PF13384 | ||||
| 323098.Nwi_1144 | PF01527 | ||||
| 323098.Nwi_0639 | PF01527 |
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
- T4SEpre bpbAac predictions (T4SEpre_bpbAac_FinalResult.csv)
- T4SEpre psAac predictions (T4SEpre_psAac_FinalResult.csv)
- 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: YES (FDR = 7.2 %)
Estimated copy number = 0.9 (9/10 KEGG proteins)
- 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=
==========================================================
Estimated copy number = 0.9 (9/10 KEGG proteins)
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