Detailed view for PVX_119750

Basic information

TDR Targets ID: 269857
Plasmodium vivax, ubiquitin-protein ligase, putative
Source Database / ID:  PlasmoDB 

pI: 9.3746 | Length (AA): 785 | MW (Da): 88988 | Paralog Number: 1

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

Druggability Group : DG5

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

PF08238   Sel1 repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  
GO:0005488   binding  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 10 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
289 508 1ouv (A) 42 253 16.00 0.0000000000016 0.64 0.46 -0.42
427 599 1ouv (A) 28 196 25.00 0.0000013 1 0.65 -1.2
675 756 1na3 (A) 2 85 16.00 0.000000000013 0.58 0.43 -1.43
1 132 4gyw (C) 350 479 14.00 0.43 0.04 0.242553 -0.07
416 737 4bwr (A) 4 333 24.00 0 1 0.568691 0.65
427 599 1ouv (A) 28 196 25.00 0.0000056 1 0.568882 -0.35
430 520 3kd7 (A) 11 105 35.00 0.02 0.95 0.483424 -0.59
673 782 1hh8 (A) 33 152 16.00 0.32 0.74 0.365327 -1.02
680 760 4eqf (A) 56 157 16.00 0.51 0.86 0.446385 -1.38
685 782 2vq2 (A) 44 148 18.00 0.72 0.52 0.293041 -0.47

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:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 24 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intraerythrocytic - 30 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intraerythrocytic - 36 hs, intraerythrocytic - 40 hs, intraerythrocytic - 48 hs. Zhu L
Show/Hide expression data references
  • Zhu L New insights into the Plasmodium vivax transcriptome using RNA-Seq.

Orthologs

Ortholog group members (OG5_127091)

Species Accession Gene Product
Arabidopsis thaliana AT1G73570   HCP-like superfamily protein
Arabidopsis thaliana AT1G18260   Hrd3/Sel1L-like protein
Babesia bovis BBOV_III007900   conserved hypothetical protein
Brugia malayi Bm1_45745   sel-1
Candida albicans CaO19.1191   degradation of Hmg CoA reductase isozyme Hmg2
Candida albicans CaO19.8782   degradation of Hmg CoA reductase isozyme Hmg2
Caenorhabditis elegans CELE_F45D3.5   Protein SEL-1
Cryptosporidium hominis Chro.60367   sel-1 protein
Cryptosporidium parvum cgd6_3170   Sel1 protein, putative
Dictyostelium discoideum DDB_G0269430   hypothetical protein
Dictyostelium discoideum DDB_G0269432   hypothetical protein
Drosophila melanogaster Dmel_CG10221   CG10221 gene product from transcript CG10221-RB
Escherichia coli b0644   Sel1 family TPR-like repeat protein
Echinococcus granulosus EgrG_000104800   protein sel 1 1
Entamoeba histolytica EHI_178100   hypothetical protein
Echinococcus multilocularis EmuJ_000104800   protein sel 1 1
Homo sapiens ENSG00000071537   sel-1 suppressor of lin-12-like (C. elegans)
Homo sapiens ENSG00000101251   sel-1 suppressor of lin-12-like 2 (C. elegans)
Leishmania braziliensis LbrM.07.0650   hypothetical protein, conserved
Leishmania donovani LdBPK_070640.1   Sel1 repeat, putative
Leishmania infantum LinJ.07.0640   hypothetical protein, conserved
Leishmania infantum LinJ.07.0650   hypothetical protein, conserved
Leishmania major LmjF.07.0590   hypothetical protein, conserved
Leishmania mexicana LmxM.07.0590   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_08490   Sel1l protein
Mus musculus ENSMUSG00000020964   sel-1 suppressor of lin-12-like (C. elegans)
Mus musculus ENSMUSG00000074764   sel-1 suppressor of lin-12-like 2 (C. elegans)
Neospora caninum NCLIV_008780   Sel1 domain protein repeat-containing protein, related
Neospora caninum NCLIV_056970   hypothetical protein, conserved
Oryza sativa 4332310   Os03g0259300
Plasmodium berghei PBANKA_0410800   ubiquitin-protein ligase, putative
Plasmodium berghei PBANKA_1312200   ubiquitin-protein ligase, putative
Plasmodium falciparum PF3D7_0313100   ubiquitin-protein ligase, putative
Plasmodium falciparum PF3D7_1448400   ubiquitin-protein ligase, putative
Plasmodium knowlesi PKNH_0829100   ubiquitin-protein ligase, putative
Plasmodium knowlesi PKNH_1233700   ubiquitin-protein ligase, putative
Plasmodium vivax PVX_118065   ubiquitin-protein ligase, putative
Plasmodium vivax PVX_119750   ubiquitin-protein ligase, putative
Plasmodium yoelii PY04510   hypothetical protein
Plasmodium yoelii PY05112   hypothetical protein
Saccharomyces cerevisiae YLR207W   ubiquitin ligase complex subunit HRD3
Schistosoma japonicum Sjp_0038630   ko:K07126 sel-1 suppressor of lin-12-like, putative
Schistosoma japonicum Sjp_0317080   expressed protein
Schistosoma mansoni Smp_133270   sel-1-like protein sel-1l
Schmidtea mediterranea mk4.007698.00   Sel-1-like protein, sel-1l
Schmidtea mediterranea mk4.010481.01  
Trypanosoma brucei gambiense Tbg972.8.790   hypothetical protein, conserved
Trypanosoma brucei Tb927.8.1250   Sel1 repeat, putative
Trypanosoma congolense TcIL3000_8_920   hypothetical protein, conserved
Trypanosoma congolense TcIL3000_0_21740   Sel1 repeat, putative
Trypanosoma cruzi TcCLB.508543.150   Sel1 repeat, putative
Trypanosoma cruzi TcCLB.506401.230   Sel1 repeat, putative
Toxoplasma gondii TGME49_254490   Sel1 repeat-containing protein
Toxoplasma gondii TGME49_313690   Sel1 repeat-containing protein
Theileria parva TP04_0695   hypothetical protein
Theileria parva TP04_0694   hypothetical protein
Trichomonas vaginalis TVAG_242010   conserved hypothetical protein

Essentiality

PVX_119750 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.1250 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.8.1250 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.1250 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.1250 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b0644 Escherichia coli non-essential goodall
PBANKA_0410800 Plasmodium berghei Essential plasmo
TGME49_313690 Toxoplasma gondii Probably essential sidik
TGME49_254490 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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.

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
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model
No druggable targets predicted through repurposing network model

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 PVX_119750 (Plasmodium vivax), ubiquitin-protein ligase, putative
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