Detailed view for PVX_085700

Basic information

TDR Targets ID: 266115
Plasmodium vivax, uracil-DNA glycosylase, putative
Source Database / ID:  PlasmoDB 

pI: 9.5057 | Length (AA): 343 | MW (Da): 38256 | Paralog Number: 0

Signal peptide: N | 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

PF03167   Uracil DNA glycosylase superfamily

Gene Ontology

Mouse over links to read term descriptions.
GO:0016799   hydrolase activity, hydrolyzing N-glycosyl compounds  
GO:0004844   uracil DNA N-glycosylase activity  
GO:0006284   base-excision repair  
GO:0006281   DNA repair  

Metabolic Pathways

Base excision repair (KEGG)

Structural information

Modbase 3D models:

There are 5 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
128 340 1akz () 83 302 48.00 0 1 1.23 -1.83
133 339 4eug (A) 6 220 52.00 0 1 1.38 -2.07
121 341 1udg (A) 19 244 36.00 0 1 1.19031 -1.25
127 340 1okb (A) 82 302 45.00 0 1 1.27721 -1.66
132 341 3tr7 (A) 8 224 52.00 0 1 1.33924 -1.46

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
Mid 40-60% percentile intraerythrocytic - 24 hs, intraerythrocytic - 30 hs, intraerythrocytic - 36 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 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_127417)

Species Accession Gene Product
Arabidopsis thaliana AT3G18630   uracil DNA glycosylase
Babesia bovis BBOV_III006230   uracil-DNA glycosylase family protein
Brugia malayi Bm1_45505   Uracil-DNA glycosylase
Candida albicans CaO19.7425   uracil-DNA-glycosylase
Cryptosporidium hominis Chro.70188   uracil-DNA glycosylase
Cryptosporidium parvum cgd7_1590   uracil-DNA glycosylase, putative
Chlamydia trachomatis CT_607   uracil DNA glycosylase
Dictyostelium discoideum DDB_G0273013   uracil glycosylase
Dictyostelium discoideum DDB_G0277877   uracil glycosylase
Escherichia coli b2580   uracil-DNA-glycosylase
Echinococcus granulosus EgrG_000855500   uracil DNA glycosylase
Entamoeba histolytica EHI_178910   uracil-DNA glycosylase, putative
Echinococcus multilocularis EmuJ_000855500   uracil DNA glycosylase
Homo sapiens ENSG00000076248   uracil-DNA glycosylase
Leishmania braziliensis LbrM.18.0540   uracil-DNA-glycosylase, putative
Leishmania donovani LdBPK_180480.1   uracil-DNA-glycosylase, putative
Leishmania infantum LinJ.18.0480   uracil-DNA-glycosylase, putative
Leishmania major LmjF.18.0480   uracil-DNA-glycosylase, putative
Leishmania mexicana LmxM.18.0480   uracil-DNA-glycosylase, putative
Loa Loa (eye worm) LOAG_01467   uracil-DNA glycosylase
Mycobacterium leprae ML1675c   PROBABLE URACIL-DNA GLYCOSYLASE UNG (UDG)
Mus musculus ENSMUSG00000029591   uracil DNA glycosylase
Mycobacterium tuberculosis Rv2976c   Probable uracil-DNA glycosylase Ung (UDG)
Mycobacterium ulcerans MUL_1980   uracil-DNA glycosylase
Oryza sativa 4337373   Os04g0673400
Plasmodium berghei PBANKA_1027700   uracil-DNA glycosylase, putative
Plasmodium falciparum PF3D7_1415000   uracil-DNA glycosylase
Plasmodium knowlesi PKNH_1343100   uracil-DNA glycosylase, putative
Plasmodium vivax PVX_085700   uracil-DNA glycosylase, putative
Plasmodium yoelii PY04457   uracil-DNA glycosylase, putative
Saccharomyces cerevisiae YML021C   Ung1p
Schistosoma japonicum Sjp_0115290   Uracil-DNA glycosylase, putative
Schistosoma japonicum Sjp_0313590   expressed protein
Schistosoma japonicum Sjp_0055250   Lamin-B2, putative
Schistosoma japonicum Sjp_0310640   Lamin-L(II), putative
Schistosoma japonicum Sjp_0113430   ko:K03648 uracil-DNA glycosylase, putative
Schistosoma mansoni Smp_158920   uracil-DNA glycosylase
Schmidtea mediterranea mk4.004180.00   Uracil-DNA glycosylase
Trypanosoma brucei gambiense Tbg972.10.17160   uracil-DNA glycosylase, putative
Trypanosoma brucei Tb927.10.13970   uracil-DNA glycosylase, putative
Trypanosoma congolense TcIL3000_10_11720   uracil-DNA glycosylase, putative
Trypanosoma cruzi TcCLB.511277.330   uracil-DNA glycosylase
Toxoplasma gondii TGME49_307650   uracil-DNA glycosylase
Theileria parva TP02_0373   uracil-DNA glycosylase, putative
Trichomonas vaginalis TVAG_320720   uracil DNA glycosylase, putative

Essentiality

PVX_085700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.13970 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.13970 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.13970 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.13970 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b2580 Escherichia coli non-essential goodall
TGME49_307650 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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
  • 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

Druggability index (range: 0 to 1): 0.8

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
Vaccinia virus (strain Western Reserve) (VACV) (Vaccinia virus (strainWR)) Uracil-DNA glycosylase Compounds References
Homo sapiens uracil-DNA glycosylase 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
0.0186 1 0.5
0.0271 0.3643 0.5
0.0075 0.5047 1
0.0123 1 1
0.0075 0.3252 0.5
0.013 0.5342 1
0.0271 0.3643 0.5
0.0145 1 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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier PVX_085700 (Plasmodium vivax), uracil-DNA glycosylase, putative
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