Detailed view for TGME49_233090

Basic information

TDR Targets ID: 260457
Toxoplasma gondii, XPG N-terminal domain-containing protein
Source Database / ID:  ToxoDB 

pI: 8.2295 | Length (AA): 945 | MW (Da): 102530 | Paralog Number: 1

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

PF00752   XPG N-terminal domain
PF00867   XPG I-region

Gene Ontology

Mouse over links to read term descriptions.
GO:0035312   5'-3' exodeoxyribonuclease activity  
GO:0016788   hydrolase activity, acting on ester bonds  
GO:0004518   nuclease activity  
GO:0003824   catalytic activity  
GO:0003677   DNA binding  
GO:0006281   DNA repair  

Metabolic Pathways

Mismatch repair (KEGG)

Structural information

Modbase 3D models:

There are 9 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
20 392 1ul1 (X) 2 357 23.00 0 1 0.82 0.68
2 326 5fv7 (A) 2 293 29.00 0.000011 1 0.210215 1.15
2 323 3qe9 (Y) 2 289 40.00 0 1 0.694041 0.08
24 195 1mc8 (A) 21 185 30.00 0.0000000066 1 0.264311 0.99
24 275 1b43 (A) 20 253 27.00 0.00000000042 1 0.389967 0.68
71 290 3ory (A) 77 273 31.00 0.0000000009 1 0.404104 1
71 195 1a76 (A) 73 185 32.00 0.000000013 1 0.276575 1.27
525 568 2mu3 (A) 133 176 48.00 0.72 0.06 0.389861 1.34
570 806 4x0j (A) 49 281 11.00 0 0.02 0.358894 -0.34

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
Lower 20-40% percentile VEG Tachyzoite, ME49 Tachyzoite, ME49 merozoite, ME49 Bradyzoite. Gregory Hehl AB Sibley/Greg
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile ME49 Oocyst. Fritz HM
Show/Hide expression data references
  • Sibley/Greg ToxoDB
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • Hehl AB Asexual expansion of Toxoplasma gondii merozoites is distinct from tachyzoites and entails expression of non-overlapping gene families to attach, invade, and replicate within feline enterocytes.
  • Gregory ToxoDB

Orthologs

Ortholog group members (OG5_127511)

Species Accession Gene Product
Arabidopsis thaliana AT1G29630   exonuclease 1
Arabidopsis thaliana AT1G18090   5'-3' exonuclease family protein
Babesia bovis BBOV_II003860   XPG I-region family protein
Brugia malayi Bm1_41330   XPG I-region family protein
Candida albicans CaO19.8541   Double-stranded DNA 5'->3exonuclease
Candida albicans CaO19.926   Double-stranded DNA 5'->3exonuclease
Caenorhabditis elegans CELE_F45G2.3   Protein EXO-1
Cryptosporidium hominis Chro.60195   XPG (rad-related) exonuclease
Cryptosporidium parvum cgd6_1580   exonuclease i/din7p-like; xeroderma pigmentosum G N-region plus xeroderma pigmentosum G I-region plus HhH2 domain
Dictyostelium discoideum DDB_G0291570   5'3'-exonuclease N- and I-domain-containing protein
Drosophila melanogaster Dmel_CG10387   tosca
Echinococcus granulosus EgrG_000244900   exonuclease 1
Entamoeba histolytica EHI_023190   exonuclease, putative
Entamoeba histolytica EHI_094260   exonuclease, putative
Echinococcus multilocularis EmuJ_000244900   exonuclease 1
Giardia lamblia GL50803_9922   Exonuclease 1
Homo sapiens ENSG00000174371   exonuclease 1
Leishmania braziliensis LbrM.23.1390   hypothetical protein, conserved
Leishmania donovani LdBPK_231530.1   XPG N-terminal domain/XPG I-region, putative
Leishmania infantum LinJ.23.1530   hypothetical protein, conserved
Leishmania major LmjF.23.1270   hypothetical protein, conserved
Leishmania mexicana LmxM.23.1270   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_08092   XPG I-region family protein
Mus musculus 26909   exonuclease 1
Neospora caninum NCLIV_068500   hypothetical protein
Neospora caninum NCLIV_032890   T10O22.7, related
Oryza sativa 4327899   Os01g0777300
Plasmodium berghei PBANKA_0622500   exonuclease I, putative
Plasmodium falciparum PF3D7_0725000   exonuclease I, putative
Plasmodium knowlesi PKNH_0320400   exonuclease I, putative
Plasmodium vivax PVX_096090   exonuclease I, putative
Plasmodium yoelii PY00878   Drosophila melanogaster CG15040 gene product
Saccharomyces cerevisiae YDR263C   Din7p
Saccharomyces cerevisiae YOR033C   Exo1p
Schistosoma japonicum Sjp_0050150   ko:K10746 exonuclease 1, putative
Schistosoma mansoni Smp_012480   exonuclease
Schmidtea mediterranea mk4.000099.09   Exonuclease 1
Schmidtea mediterranea mk4.000099.08   Exonuclease 1
Trypanosoma brucei gambiense Tbg972.8.2960   exonuclease, putative
Trypanosoma brucei Tb927.8.3220   exonuclease, putative
Trypanosoma congolense TcIL3000_8_3250   exonuclease, putative
Trypanosoma cruzi TcCLB.510517.90   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.507851.50   hypothetical protein, conserved
Toxoplasma gondii TGME49_233090   XPG N-terminal domain-containing protein
Toxoplasma gondii TGME49_277150   XPG N-terminal domain-containing protein
Theileria parva TP04_0148   hypothetical protein
Theileria parva TP04_0147   exonuclease I, putative
Trichomonas vaginalis TVAG_212470   flap endonuclease-1, putative
Trichomonas vaginalis TVAG_373290   flap endonuclease-1, putative
Trichomonas vaginalis TVAG_035460   exonuclease%2C+putative
Trichomonas vaginalis TVAG_468100   flap endonuclease-1, putative

Essentiality

TGME49_233090 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.3220 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.3220 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.3220 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.3220 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0622500 Plasmodium berghei Slow plasmo
TGME49_233090 this record Toxoplasma gondii Probably essential sidik
TGME49_277150 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.

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 TGME49_233090 (Toxoplasma gondii), XPG N-terminal domain-containing protein
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