Detailed view for TGME49_242300

Basic information

TDR Targets ID: 258840
Toxoplasma gondii, dihydrodipicolinate synthase
Source Database / ID:  ToxoDB 

pI: 6.7996 | Length (AA): 340 | MW (Da): 36813 | 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

PF00701   Dihydrodipicolinate synthetase family

Gene Ontology

Mouse over links to read term descriptions.
GO:0008840   dihydrodipicolinate synthase activity  
GO:0003824   catalytic activity  
GO:0016829   lyase activity  
GO:0008152   metabolic process  
GO:0019877   diaminopimelate biosynthetic process  
GO:0009089   lysine biosynthetic process via diaminopimelate  

Structural information

Modbase 3D models:

There are 3 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
5 315 4hnn (F) 12 311 30.00 0 1 1.29151 -0.71
14 306 3tak (A) 1 288 50.00 0 1 1.59936 -1.54
16 306 1o5k (A) 3 291 43.00 0 1 1.46548 -1.16

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
NA% percentile VEG Tachyzoite, ME49 Tachyzoite. Gregory
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile ME49 merozoite, ME49 Oocyst. Hehl AB Fritz HM
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile ME49 Bradyzoite. Sibley/Greg
Show/Hide expression data references
  • Sibley/Greg ToxoDB
  • 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.
  • Fritz HM Transcriptomic analysis of toxoplasma development reveals many novel functions and structures specific to sporozoites and oocysts.

Orthologs

Ortholog group members (OG5_127458)

Species Accession Gene Product
Arabidopsis thaliana AT3G60880   dihydrodipicolinate synthase 1
Arabidopsis thaliana AT2G45440   dihydrodipicolinate synthase
Chlamydia trachomatis CT_361   4-hydroxy-tetrahydrodipicolinate synthase
Escherichia coli b4298   putative lyase/synthase
Escherichia coli b0268   2-keto-3-deoxy gluconate (KDG) aldolase
Escherichia coli b2478   dihydrodipicolinate synthase
Homo sapiens ENSG00000241935   4-hydroxy-2-oxoglutarate aldolase 1
Mycobacterium leprae ML1513c   PROBABLE DIHYDRODIPICOLINATE SYNTHASE DAPA (DHDPS) (DIHYDRODIPICOLINATE SYNTHETASE)
Mus musculus ENSMUSG00000025176   4-hydroxy-2-oxoglutarate aldolase 1
Mycobacterium tuberculosis Rv2753c   Probable dihydrodipicolinate synthase DapA (DHDPS) (dihydrodipicolinate synthetase)
Mycobacterium ulcerans MUL_2184   dihydrodipicolinate synthase
Mycobacterium ulcerans MUL_1739   dihydrodipicolinate synthase DapA
Neospora caninum NCLIV_017480   Dihydrodipicolinate synthase, related
Oryza sativa 4335317   Os04g0254000
Schmidtea mediterranea mk4.045113.01  
Toxoplasma gondii TGME49_242300   dihydrodipicolinate synthase
Trichomonas vaginalis TVAG_044970   dihydrodipicolinate synthase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0210   dihydrodipicolinate synthase

Essentiality

TGME49_242300 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
b0268 Escherichia coli non-essential goodall
b2478 Escherichia coli essential goodall
b4298 Escherichia coli non-essential goodall
TGME49_242300 this record Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.
  • 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.

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
Species Known druggable target Linked compounds Reference
Escherichia coli dihydrodipicolinate synthase 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
0.0126 1 0.5
0.0113 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 TGME49_242300 (Toxoplasma gondii), dihydrodipicolinate synthase
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