Detailed view for PBANKA_1121900

Basic information

TDR Targets ID: 826717
Plasmodium berghei, chorismate synthase, putative
Source Database / ID: 

pI: 7.9559 | Length (AA): 506 | MW (Da): 57196 | Paralog Number: 0

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

Druggability Group : DG

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

PF01264   Chorismate synthase

Gene Ontology

Mouse over links to read term descriptions.
GO:0004107   chorismate synthase activity  
GO:0009073   aromatic amino acid family biosynthetic process  

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
1 506 1um0 (A) 1 365 39.00 0 1 0.9544 1.03
1 486 1r53 (A) 1 368 44.00 0 1 0.607474 1.5
316 408 4a55 (B) 473 565 15.00 0 0.01 0.415794 -1.14

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 80-100% percentile 16 hs Trophozoite, Erthyrocytic stages. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Male gametocyte. Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Gametocyte, Ookinete, 4 hs Ring, 22 hs Schizont, Female gametocyte. Otto TD Yeoh LM
Show/Hide expression data references
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.

Orthologs

Ortholog group members (OG5_128304)

Species Accession Gene Product
Arabidopsis thaliana AT1G48850   chorismate synthase
Candida albicans CaO19.3489   chorismate synthase
Candida albicans CaO19.1986   Chorismate synthase
Chlamydia trachomatis CT_368   chorismate synthase
Escherichia coli b2329   chorismate synthase
Mycobacterium leprae ML0516   Chorismate synthase AroF (5-enolpyruvylshikimate-3-phosphate phospholyase).
Mycobacterium tuberculosis Rv2540c   Probable chorismate synthase AroF (5-enolpyruvylshikimate-3-phosphate phospholyase)
Mycobacterium ulcerans MUL_1759   chorismate synthase
Neospora caninum NCLIV_023120   Chorismate synthase (EC 4.2.3.5), related
Oryza sativa 4332286   Os03g0254800
Plasmodium berghei PBANKA_1121900   chorismate synthase, putative
Plasmodium falciparum PF3D7_0623000   chorismate synthase
Plasmodium knowlesi PKNH_1127200   chorismate synthase, putative
Plasmodium vivax PVX_114265   chorismate synthase
Plasmodium yoelii PY04071   chorismate synthase, putative
Saccharomyces cerevisiae YGL148W   bifunctional chorismate synthase/riboflavin reductase [NAD(P)H] ARO2
Toxoplasma gondii TGME49_201380   chorismate synthase, putative

Essentiality

PBANKA_1121900 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
b2329 Escherichia coli non-essential goodall
PBANKA_1121900 this record Plasmodium berghei Dispensable plasmo
TGME49_201380 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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

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
Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) Chorismate synthase Compounds References
By sequence similarity to non orthologous druggable targets
Species Target Length Identity Alignment span Linked Drugs Reference
Human T-lymphotropic virus 1 Protease 166 aa 22.8% 136 aa Compounds References
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 PBANKA_1121900 (Plasmodium berghei), chorismate synthase, putative
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