Detailed view for TGME49_239410

Basic information

TDR Targets ID: 259001
Toxoplasma gondii, hypothetical protein
Source Database / ID:  ToxoDB 

pI: 9.6481 | Length (AA): 2507 | MW (Da): 256133 | Paralog Number: 1

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

Druggability Group : DG1

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

PF14570   RING/Ubox like zinc-binding domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0008270   zinc ion binding  
GO:0005515   protein binding  
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  

Metabolic Pathways

RNA degradation (KEGG)

Structural information

Modbase 3D models:

There are 11 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
107 182 1mey (C) 9 84 7.00 0.017 0 0.186615 -1.14
271 370 3hct (A) 54 149 21.00 0 0.56 0.291188 -0.63
285 334 5aie (A) 31 82 58.00 0 1 0.689244 -0.65
453 560 2cpi (A) 94 198 50.00 0 1 0.579379 0.34
470 556 2cpe (A) 361 448 32.00 0.79 1 0.240003 -0.35
723 881 5cwk (A) 23 171 15.00 0 0.23 0.193722 -0.6
784 891 4tsh (A) 63 170 8.00 0 0 0.213379 -1.26
1288 1419 3s6l (A) 21 139 34.00 0.19 0.24 0.232953 0.74
2141 2329 4ke2 (A) 3 188 17.00 0.011 0.03 0.213689 -0.13
2202 2427 5cwi (A) 8 234 14.00 0.074 0.12 0.221448 -0.47
2395 2479 5d2s (A) 101 181 9.00 0 0 0.296205 -2.57

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 VEG Tachyzoite, ME49 Tachyzoite, ME49 Oocyst, ME49 Bradyzoite. Gregory Fritz HM Sibley/Greg
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile ME49 merozoite. Hehl AB
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.
  • Gregory ToxoDB
  • 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.

Orthologs

Ortholog group members (OG5_127674)

Species Accession Gene Product
Arabidopsis thaliana AT3G45630   RNA binding (RRM/RBD/RNP motifs) family protein
Arabidopsis thaliana AT2G28540   RNA recognition motif-containing protein
Arabidopsis thaliana AT5G60170   RNA binding (RRM/RBD/RNP motifs) family protein
Babesia bovis BBOV_IV004110   conserved hypothetical protein
Brugia malayi Bm1_39595   Not-like
Candida albicans CaO19.2379   potential RRM domain protein similar to MOT2 (YER068W) component of the cytoplasmic mRNA deadenylase and CCR4-NOT transcription
Candida albicans CaO19.9915   potential RRM domain protein similar to MOT2 (YER068W) component of the cytoplasmic mRNA deadenylase and CCR4-NOT transcription
Caenorhabditis elegans CELE_C49H3.5   Protein NTL-4, isoform B
Cryptosporidium hominis Chro.70553   protein potential transcriptional repressor Not4hp
Cryptosporidium parvum cgd7_4960   Not4hp/Mot2p, RING finger+RRM domains
Dictyostelium discoideum DDB_G0275005   RING zinc finger-containing protein
Drosophila melanogaster Dmel_CG31716   Cnot 4 homologue
Echinococcus granulosus EgrG_001028400   CCR4 NOT transcription complex subunit 4
Entamoeba histolytica EHI_080710   hypothetical protein, conserved
Echinococcus multilocularis EmuJ_001028400   CCR4 NOT transcription complex subunit 4
Giardia lamblia GL50803_8427   Transcriptional repressor NOT4Hp, putative
Homo sapiens ENSG00000080802   CCR4-NOT transcription complex, subunit 4
Loa Loa (eye worm) LOAG_11511   CCR4-NOT transcription complex component
Loa Loa (eye worm) LOAG_14798   hypothetical protein
Mus musculus ENSMUSG00000038784   CCR4-NOT transcription complex, subunit 4
Neospora caninum NCLIV_016050   hypothetical protein
Oryza sativa 4351244   Os12g0102400
Oryza sativa 4349535   Os11g0102800
Plasmodium berghei PBANKA_1449900   CCR4-NOT transcription complex subunit 4, putative
Plasmodium falciparum PF3D7_1235300   CCR4-NOT transcription complex subunit 4, putative
Plasmodium knowlesi PKNH_1455000   CCR4-NOT transcription complex subunit 4, putative
Plasmodium vivax PVX_100715   hypothetical protein, conserved
Plasmodium yoelii PY00512   putative protein potential transcriptional repressor Not4hp
Saccharomyces cerevisiae YER068W   CCR4-NOT core ubiquitin-protein ligase subunit MOT2
Schistosoma japonicum Sjp_0037100   ko:K10643 CCR4-NOT transcription complex, subunit 4, putative
Schmidtea mediterranea mk4.000299.11  
Toxoplasma gondii TGME49_328300   hypothetical protein
Toxoplasma gondii TGME49_239410   hypothetical protein
Theileria parva TP01_0345   hypothetical protein
Trichomonas vaginalis TVAG_450320   conserved hypothetical protein
Trichomonas vaginalis TVAG_415730   conserved hypothetical protein
Trichomonas vaginalis TVAG_407280   conserved hypothetical protein

Essentiality

TGME49_239410 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
CELE_C49H3.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_C49H3.5 Caenorhabditis elegans slow growth wormbase
TGME49_239410 this record Toxoplasma gondii Probably essential sidik
TGME49_328300 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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

Druggability index (range: 0 to 1): 0.3

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.

User comments

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Gene identifier TGME49_239410 (Toxoplasma gondii), hypothetical protein
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