Detailed view for TGME49_242415

Basic information

TDR Targets ID: 324356
Toxoplasma gondii, histone lysine-specific demethylase
Source Database / ID:  ToxoDB 

pI: 7.9556 | Length (AA): 3802 | MW (Da): 413601 | 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

PF01593   Flavin containing amine oxidoreductase
PF13450   NAD(P)-binding Rossmann-like domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016491   oxidoreductase activity  
GO:0055114   oxidation reduction  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
561 628 1s3e (A) 4 61 60.00 0.00000061 0.93 0.383185 1.46
561 1099 5kox (A) 1 471 17.00 0.000043 0.91 0.0919675 1.14
563 604 2bxr (A) 15 56 62.00 0.000049 0.51 0.543347 1.27
1610 2070 4gut (A) 378 820 17.00 0.000000000012 1 0.263452 -0.09
1615 2076 1b37 (A) 5 461 18.00 0 1 0.247715 0.27
1694 1757 5hzp (C) 56 119 11.00 0 0 0.424833 -3.68
1697 1757 5bs7 (E) 615 675 8.00 0 0 0.326044 -3
1879 2075 2iw5 (A) 627 831 32.00 0 0.77 0.192815 0.86
2354 2579 5cwm (A) 4 227 19.00 0.16 0.25 0.284642 -0.67
3125 3307 4uos (A) 1 183 8.00 0 0 0.264133 -2.06
3189 3421 5cwq (A) 7 235 29.00 0.015 0.78 0.193584 -0.36

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

Orthologs

Ortholog group members (OG5_226680)

Species Accession Gene Product
Neospora caninum NCLIV_017570   amine oxidase, flavin-containing domain- containing protein, putative
Toxoplasma gondii TGME49_242415   histone lysine-specific demethylase

Essentiality

TGME49_242415 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
TGME49_242415 this record Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0086 0.5 0.5
0.0023 0.5 0.5
0.0085 1 0.5
0.0239 0.2732 0.5
0.0177 0.4028 1
0.0042 0.5 0.5
0.0063 1 0.5
0.0131 0.5 0.5
0.0062 1 0.5
0.0153 1 0.5
0.0042 0.2805 1
0.0135 0.4325 0.5
0.011 0.3084 0.5
0.0109 1 0.5
0.0255 0.6236 0.5
0.0023 0.5 0.5
0.0087 0.3247 0.5
0.0063 1 0.5
0.0262 1 0.5
0.0439 0.3516 1
0.0478 0.2943 0.612
0.013 1 0.5
0.0272 1 0.5
0.0108 1 0.5
0.014 0.9532 1
0.0051 1 1
0.0064 1 0.5
0.0419 1 0.5
0.0048 0.6551 0.6551
0.0217 1 1
0.0262 1 0.5
0.0041 1 0.5
0.0065 1 0.5
0.0064 1 0.5
0.0282 0.5 0.5
0.0025 0.4128 0.5
0.0137 0.7284 1

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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Gene identifier TGME49_242415 (Toxoplasma gondii), histone lysine-specific demethylase
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