Detailed view for TGME49_259560

Basic information

TDR Targets ID: 261961
Toxoplasma gondii, endonuclease/exonuclease/phosphatase family protein
Source Database / ID:  ToxoDB 

pI: 6.2528 | Length (AA): 1558 | MW (Da): 164513 | 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

PF03372   Endonuclease/Exonuclease/phosphatase family

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

RNA degradation (KEGG)

Structural information

Modbase 3D models:

There are 7 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
593 703 2mqa (A) 27 135 12.00 0 0 0.229745 -0.9
866 945 4dt5 (A) 27 119 38.00 0.11 0.11 0.196148 0.78
971 1556 4z2b (A) 219 608 28.00 0 1 0.0686232 1.04
992 1164 4z0v (A) 250 403 30.00 0 0.88 0.23254 0.43
1029 1556 3ngn (A) 170 538 33.00 0 0.9 -0.065204 1.62
1044 1216 3l1w (A) 1 151 21.00 0 0.9 0.12054 0.57
1047 1128 4b8c (D) 467 774 26.00 0 0.84 0.360132 -0.09

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 VEG Tachyzoite, ME49 Tachyzoite, ME49 merozoite, ME49 Oocyst, ME49 Bradyzoite. Gregory Hehl AB Fritz HM Sibley/Greg
Show/Hide expression data references
  • 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
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.
  • Sibley/Greg ToxoDB

Orthologs

Ortholog group members (OG5_127911)

Species Accession Gene Product
Arabidopsis thaliana AT3G58580   DNAse I-like superfamily protein
Arabidopsis thaliana AT3G58560   carbon catabolite repressor protein 4-like 1
Brugia malayi Bm1_37535   CCR4
Candida albicans CaO19.5101   potential mRNA deadenylase similar to S. cerevisiae CCR4 (YAL021C) ribonuclease component of the cytoplasmic mRNA deadenylase an
Candida albicans CaO19.12567   potential mRNA deadenylase similar to S. cerevisiae CCR4 (YAL021C) ribonuclease component of the cytoplasmic mRNA deadenylase an
Cryptosporidium hominis Chro.40217   hypothetical protein
Cryptosporidium parvum cgd4_1920   hypothetical protein
Dictyostelium discoideum DDB_G0289461   endonuclease/exonuclease/phosphatase domain-containing protein
Drosophila melanogaster Dmel_CG31137   CG31137 gene product from transcript CG31137-RE
Echinococcus granulosus EgrG_000611400   CCR4 NOT transcription complex subunit 6
Echinococcus multilocularis EmuJ_000611400   CCR4 NOT transcription complex subunit 6
Homo sapiens ENSG00000138767   CCR4-NOT transcription complex, subunit 6-like
Homo sapiens ENSG00000113300   CCR4-NOT transcription complex, subunit 6
Loa Loa (eye worm) LOAG_02052   CCR4-NOT transcription complex subunit 6 family protein
Mus musculus ENSMUSG00000034724   CCR4-NOT transcription complex, subunit 6-like
Mus musculus ENSMUSG00000020362   CCR4-NOT transcription complex, subunit 6
Neospora caninum NCLIV_027220   Carbon catabolite repressor protein, related
Oryza sativa 4348610   Os10g0412100
Oryza sativa 4331740   Os03g0166800
Plasmodium berghei PBANKA_1234300   carbon catabolite repressor protein 4, putative
Plasmodium falciparum PF3D7_0519500   carbon catabolite repressor protein 4, putative
Plasmodium knowlesi PKNH_1013600   carbon catabolite repressor protein 4, putative
Plasmodium vivax PVX_080270   hypothetical protein, conserved
Plasmodium yoelii PY04723   Arabidopsis thaliana At3g58560/F14P22_150-related
Saccharomyces cerevisiae YAL021C   Ccr4p
Schistosoma japonicum Sjp_0107760   CCR4-NOT transcription complex subunit 6-like, putative
Schistosoma japonicum Sjp_0079730   ko:K01175 CCR4-NOT transcription complex, subunit 6-like [EC:3.1.-.-], putative
Schistosoma mansoni Smp_172270   carbon catabolite repressor protein
Schmidtea mediterranea mk4.000014.06   Not6
Toxoplasma gondii TGME49_259560   endonuclease/exonuclease/phosphatase family protein
Trichomonas vaginalis TVAG_404050   carbon catabolite repressor protein, putative
Trichomonas vaginalis TVAG_064670   carbon catabolite repressor protein, putative

Essentiality

TGME49_259560 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1234300 Plasmodium berghei Dispensable plasmo
TGME49_259560 this record Toxoplasma gondii Essentiality uncertain 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.
  • 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.

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

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Gene identifier TGME49_259560 (Toxoplasma gondii), endonuclease/exonuclease/phosphatase family protein
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