Detailed view for PF3D7_0527100

Basic information

TDR Targets ID: 4302
Plasmodium falciparum, ubiquitin-conjugating enzyme E2 N, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 6.8723 | Length (AA): 152 | MW (Da): 17411 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG3

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF00179   Ubiquitin-conjugating enzyme

Gene Ontology

Mouse over links to read term descriptions.
GO:0019787   small conjugating protein ligase activity  
GO:0051246   regulation of protein metabolic process  
GO:0043687   post-translational protein modification  

Metabolic Pathways

Ubiquitin mediated proteolysis (KEGG)

Structural information

Modbase 3D models:

There are 6 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
2 152 1yh6 (A) 25 173 30.00 0 1 1.48 -1.66
2 149 1j7d (B) 3 150 68.00 0 1 1.91 -1.86
7 114 2awf (A) 10 131 37.00 0 1 1.34 -2.17
3 144 4yii (U) 31 172 42.00 0 1 1.66171 -2.19
3 149 2r0j (A) 2 148 99.99 0 1 2.27361 -2.18
6 147 1yh2 (A) 6 151 51.00 0 1 1.72771 -2.15

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

PDB tag
  • 2R0J:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 3E95:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, merozoite, sporozoite, early ring, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Oocyst, Ring, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Sporozoite. Zanghi G
Show/Hide expression data references
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.

Orthologs

Ortholog group members (OG5_127739)

Species Accession Gene Product
Arabidopsis thaliana AT1G16890   ubiquitin-conjugating enzyme E2 36
Arabidopsis thaliana AT1G78870   ubiquitin-conjugating enzyme E2 35
Babesia bovis BBOV_IV007110   ubiquitin-conjugating enzyme E2, putative
Brugia malayi Bm1_32080   ubiquitin conjugating enzyme protein 13
Brugia malayi Bm1_31770   Ubiquitin conjugating enzyme protein 13
Candida albicans CaO19.2225   ubiquitin-conjugating enzyme
Candida albicans CaO19.8548   post-replication repair
Candida albicans CaO19.933   ubiquitin conjugating enzyme
Caenorhabditis elegans CELE_Y54G2A.31   Protein UBC-13
Cryptosporidium hominis Chro.30262   ubiquitin-conjugating enzyme
Cryptosporidium parvum cgd3_2220   ubiquitin-conjugating enzyme
Dictyostelium discoideum DDB_G0277267   hypothetical protein
Drosophila melanogaster Dmel_CG3473   CG3473 gene product from transcript CG3473-RB
Drosophila melanogaster Dmel_CG18319   bendless
Echinococcus granulosus EgrG_000334400   ubiquitin conjugating enzyme E2 N
Entamoeba histolytica EHI_164400   ubiquitin-conjugating enzyme family protein
Echinococcus multilocularis EmuJ_000334400   ubiquitin conjugating enzyme E2 N
Homo sapiens 7334   _UBC13, UbcH-ben, UbcH13
Leishmania braziliensis LbrM.04.0880   ubiquitin-conjugating enzyme e2, putative
Leishmania donovani LdBPK_040680.1   ubiquitin-conjugating enzyme E2, putative
Leishmania infantum LinJ.04.0680   ubiquitin-conjugating enzyme e2, putative
Leishmania major LmjF.04.0680   ubiquitin-conjugating enzyme e2, putative
Leishmania mexicana LmxM.04.0680   ubiquitin-conjugating enzyme e2, putative
Loa Loa (eye worm) LOAG_03706   ubiquitin conjugating enzyme protein 13
Loa Loa (eye worm) LOAG_08714   ubiquitin conjugating enzyme protein 13
Mus musculus 100041224   predicted gene 3213
Mus musculus ENSMUSG00000074781   ubiquitin-conjugating enzyme E2N
Mus musculus 102642334   ubiquitin-conjugating enzyme E2 N-like
Neospora caninum NCLIV_044380   Ubiquitin carrier protein (EC 6.3.2.-), related
Oryza sativa 4325905   Os01g0673600
Plasmodium berghei PBANKA_1241900   ubiquitin-conjugating enzyme E2 N, putative
Plasmodium falciparum PF3D7_0527100   ubiquitin-conjugating enzyme E2 N, putative
Plasmodium knowlesi PKNH_1005600   ubiquitin-conjugating enzyme E2 N, putative
Plasmodium vivax PVX_079885   ubiquitin-conjugating enzyme E2 N, putative
Saccharomyces cerevisiae YDR092W   E2 ubiquitin-conjugating protein UBC13
Schistosoma japonicum Sjp_0042100   ko:K10580 ubiquitin-conjugating enzyme E2 N, putative
Schistosoma mansoni Smp_083400   ubiquitin conjugating enzyme 13
Schmidtea mediterranea mk4.006434.00  
Schmidtea mediterranea mk4.019358.00   Ubiquitin-conjugating enzyme E2 N
Trypanosoma brucei gambiense Tbg972.9.4360   ubiquitin-conjugating enzyme e2, putative,ubiquitin carrier protein, putative,ubiquitin-protein ligase, putative
Trypanosoma brucei Tb927.9.8000   ubiquitin-protein ligase, putative
Trypanosoma congolense TcIL3000_9_2750   ubiquitin-protein ligase, putative
Trypanosoma cruzi TcCLB.453445.20   ubiquitin-conjugating enzyme E2, putative
Trypanosoma cruzi TcCLB.508137.30   ubiquitin-conjugating enzyme E2, putative
Toxoplasma gondii TGME49_304770   ubiquitin-conjugating enzyme subfamily protein
Theileria parva TP01_0508   ubiquitin-protein ligase, putative
Trichomonas vaginalis TVAG_154710   ubiquitin-conjugating enzyme E2, putative
Trichomonas vaginalis TVAG_452760   ubiquitin-conjugating enzyme E2, putative

Essentiality

PF3D7_0527100 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.0050 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.0050 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.211.0050 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb09.211.0050 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y54G2A.31 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y54G2A.31 Caenorhabditis elegans slow growth wormbase
PBANKA_1241900 Plasmodium berghei Essential plasmo
TGME49_304770 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.

Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Homo sapiens _UBC13, UbcH-ben, UbcH13 Compounds References
Influenza A virus Neuraminidase Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0284 0.2769 0.5
0.045 1 0.5
0.0574 0.3584 0.5
0.0191 0.4715 1
0.0222 0.523 1
0.0044 1 1
0.0046 0.902 0.5
0.0305 0.2664 0.5
0.0323 0.4303 1
0.0044 1 1
0.0646 0.6098 1
0.0495 0.5267 0.5
0.0748 0.5602 1
0.0115 0.2754 1
0.0037 1 1
0.0314 0.3068 0.3605
0.015 0.5 0.5
0.0201 0.8766 0.5
0.0309 0.2524 0.248
0.028 0.5 0.5
0.0041 1 1
0.0041 0.5163 0.5069
0.036 0.8753 1
0.082 0.298 1
0.004 0.6566 1
0.0299 0.5729 1
0.0392 0.5902 0.5
0.0166 0.6551 0.5
0.169 0.4323 1
0.0046 0.7658 0.5
0.0039 1 1
0.0396 1 1
0.0639 1 0.5
0.004 0.515 0.5057
0.004 0.7623 0.7575
0.0039 1 1
0.0081 0.3407 1
0.0288 0.6708 0.5
0.0284 1 0.5
0.0037 1 1
0.0228 0.2892 0.5
0.0244 0.3896 0
0.0486 0.3489 0.5
0.0625 0.3255 1
0.0496 0.2947 1
0.079 0.5406 0.5
0.0656 0.2953 0.5
0.0239 0.7202 0.5
0.035 0.429 0.5
0.0165 0.7827 1
0.0308 0.3213 1
0.0817 0.7135 0.5
0.0279 0.6649 0.8718
0.0491 0.3151 0.5
0.0355 0.5292 1
0.0622 0.3338 1
0.0535 0.5655 1
0.0077 0.3361 0.2432
0.0413 0.2528 0.5
0.0046 0.6566 1
0.0487 0.5427 1
0.0124 1 1
0.0124 0.4847 1
0.0242 0.5 0.5
0.0412 0.4761 0.5
0.0675 1 0.5
0.0345 0.5129 0.5
0.0882 0.5515 1
0.0046 1 0.5
0.004 0.5365 0.5275
0.0748 0.5602 1
0.011 0.318 1
0.0255 0.6245 0.5
0.0162 0.2578 1
0.0121 0.5 0.5
0.0278 0.3181 1
0.0646 0.6098 1
0.0327 0.35 1
0.0133 0.2885 1
0.2063 0.5565 1
0.0037 0.7023 0.6963
0.0616 0.7157 1
0.0646 0.6098 1
0.0323 0.4303 1
0.0075 0.4486 1
0.0567 0.6605 0.5
0.008 0.6111 1
0.0253 1 1
0.1207 0.3674 0.3921
0.0075 0.3254 1
0.216 0.5676 1
0.0244 0.5 0.5
0.0124 1 1
0.0075 0.4888 1
0.0391 0.6211 0.5
0.0748 0.5602 1
0.0087 0.3325 0.5
0.0039 1 1
0.0124 0.7803 0.5
0.0041 1 1
0.0165 0.2533 0.5
0.0041 0.7936 0.7895
0.0041 1 1
0.0882 0.5515 1
0.021 0.2678 0.7456
0.004 0.5142 1
0.039 0.2657 0.5
0.0165 0.5199 1
0.004 0.7426 0.7374
0.0208 0.5514 1
0.0412 0.5699 1
0.0491 1 0.5
0.024 0.3392 1
0.024 0.2725 0.5
0.0821 0.8113 0.5
0.0285 1 1
0.0323 0.4303 1
0.0038 1 1
0.004 0.557 0.5
0.0039 1 1
0.0039 0.4894 0.5
0.0253 1 1
0.0156 1 0.5
0.015 0.5 0.5
0.0046 0.5267 0.5
0.0082 0.3189 1
0.004 0.5233 0.5141
0.0434 0.6329 0.5
0.0625 0.3255 1
0.0391 0.3945 1
0.0428 0.5409 1
0.0656 0.2953 0.5
0.0042 0.5414 0.5325
0.0882 0.5515 1
0.0159 0.5065 1
0.0046 0.258 0.5
0.0201 0.2794 1
0.0622 0.3338 1
0.2067 0.6677 1
0.004 1 1
0.0443 0.3413 0.5
0.0037 0.5407 0.5
0.0553 0.5946 0.5
0.0125 0.3916 1
0.0533 0.8283 1
0.0046 0.7631 1
0.0042 0.6418 1
0.004 1 1
0.0673 0.3302 1
0.0077 0.3361 0.2432
0.0046 0.2675 1
0.035 0.2516 0.5
0.0601 0.9999 0.5
0.0195 1 1
0.0124 1 1
0.0323 0.4303 1
0.0489 0.5414 1
0.0573 1 0.5
0.0046 0.5 0.5
0.0121 0.3474 0.5
0.0046 0.6514 1
0.0046 0.6042 1
0.0124 0.7803 0.5
0.0286 0.5429 0.5
0.0281 0.4716 1
0.0286 0.5429 0.5
0.012 0.3274 0.5
0.0306 0.2545 0.5
0.004 0.7426 0.7374
0.0528 0.5499 0.5
0.004 0.6566 1
0.0308 0.5897 1
0.0889 0.7981 1
0.0121 1 1
0.169 0.4454 1
0.0038 1 1
0.0204 0.521 0.5
0.0081 0.3407 1
0.0046 0.5 0.5
0.0585 0.288 1
0.0248 0.5296 1
0.0124 0.4325 1
0.0404 0.7332 1
0.0358 0.3832 1
0.004 0.7622 0.7574
0.0275 0.2665 0.5
0.0327 0.6846 1
0.0256 0.3143 1
0.0038 1 1
0.0041 0.5411 0.5322
0.0039 0.4782 0.468
0.0323 0.3184 0
0.0119 0.7629 1
0.0391 0.4649 1
0.0871 0.3966 1
0.0323 0.3184 0
0.0283 0.6788 1
0.0396 0.2871 0.5
0.0226 0.3579 1
0.0046 0.258 0.5
0.0314 0.3068 0.3605
0.0776 0.885 0.5
0.0443 0.3413 0.5
0.0046 0.258 0.5
0.0033 1 0.5
0.0412 0.5699 1
0.0585 0.288 1
0.032 0.9366 0.5
0.0235 1 1
0.0254 0.2928 1
0.0636 1 0.5
0.0317 0.3672 0.5
0.012 0.3274 0.5
0.0528 0.5499 0.5
0.004 1 0.5
0.0046 1 0.5
0.0154 0.5447 1
0.015 0.5 0.5
0.0167 1 1
0.1383 0.5975 1
0.0487 0.5427 1
0.0576 0.5959 1
0.0046 0.7631 1
0.0088 1 0.5
0.021 0.2678 0.7456
0.0487 0.5427 1
0.0487 0.5427 1
0.0039 1 1
0.021 0.2678 0.7456
0.072 0.4848 1
0.0254 0.2928 1
0.0738 0.6411 1
0.0673 0.3302 1
0.0112 0.5658 1
0.0455 0.4231 0.5
0.0323 0.4303 1
0.0417 0.4705 0.5
0.0212 1 1
0.0889 0.7981 1
0.0256 0.3143 1
0.0046 0.4858 0.5
0.0527 0.366 0.5
0.0323 0.3184 0
0.0305 0.2902 1
0.0077 0.2687 1
0.0166 0.423 0.5
0.0244 0.3452 1
0.0656 0.2953 0.5
0.0156 0.4528 1
0.0037 0.2522 1
0.0403 0.2985 0.5
0.0261 0.2861 0.5
0.1777 0.4803 0.5
0.0046 0.902 0.5
0.0615 0.3938 0.5
0.0278 1 1
0.0207 1 1
0.0821 0.9295 1
0.0571 1 1
0.0261 1 0.5
0.0046 0.5 0.5
0.0496 0.2947 1
0.004 0.5365 0.5275
0.0154 0.5447 1
0.0328 0.3218 1
0.0314 0.3068 0.3605
0.0261 0.2861 0.5
0.0309 0.2524 0.248
0.0748 0.5602 1
0.0046 0.4963 1
0.1032 0.5443 0.5
0.07 0.37 1
0.0487 0.5427 1
0.0202 0.8822 0.5
0.0192 1 1
0.0267 0.503 1
0.0821 0.8113 0.5
0.0074 0.397 0.5
0.0112 0.367 1
0.0387 0.3326 0.5
0.0609 0.2815 1
0.0929 0.5607 1
0.0613 0.7225 0.5
0.082 0.7156 0.5
0.031 0.5085 0.5
0.0307 0.4823 0.5
0.0661 0.7722 0.5
0.0528 0.5499 0.5
0.216 0.5676 1
0.0861 1 1
0.0045 0.5392 1
0.0444 1 0.5
0.0078 1 1
0.0039 1 1
0.008 1 1
0.0496 1 0.5
0.0487 0.5427 1
0.0288 1 1
0.0053 0.2572 0.5
0.0166 0.5212 0.5
0.021 0.2678 0.7456
0.0487 0.5427 1
0.2115 0.6419 1
0.0128 0.7581 1
0.0155 0.5117 0.5
0.004 0.7775 0.773
0.0646 0.6098 1
0.059 0.287 1
0.004 0.7591 0.7542
0.079 0.5809 0.5

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

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User comments

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Gene identifier PF3D7_0527100 (Plasmodium falciparum), ubiquitin-conjugating enzyme E2 N, putative
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