Detailed view for TcCLB.509139.10

Basic information

TDR Targets ID: 40179
Trypanosoma cruzi, glycerate kinase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.3784 | Length (AA): 525 | MW (Da): 56357 | 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

PF02595   Glycerate kinase family

Gene Ontology

Mouse over links to read term descriptions.
GO:0008887   glycerate kinase activity  
GO:0031388   organic acid phosphorylation  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 4 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
11 506 1to6 (A) 1 370 25.00 0 1 0.73 0.78
11 505 3cwc (A) 1 375 31.00 0 1 0.901657 0.84
12 394 3cwc (A) 2 297 36.00 0 1 0.793124 0.88
44 125 3jvl (A) 348 423 33.00 0.85 0.89 0.45399 -0.18

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 epimastigote, metacyclic. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_132763)

Species Accession Gene Product
Dictyostelium discoideum DDB_G0277163   hypothetical protein
Escherichia coli b3124   glycerate kinase I
Escherichia coli b0514   glycerate kinase II
Entamoeba histolytica EHI_196910   glycerate kinase, putative
Leishmania braziliensis LbrM.02.0480   glycerate kinase, putative;with=GeneDB:LmjF02.0500
Leishmania donovani LdBPK_020470.1   glycerate kinase, putative
Leishmania infantum LinJ.02.0470   glycerate kinase, putative;with=GeneDB:LmjF02.0500
Leishmania major LmjF.02.0500   glycerate kinase, putative
Leishmania mexicana LmxM.02.0500   hypothetical protein, conserved
Mycobacterium tuberculosis Rv2205c   Conserved hypothetical protein
Mycobacterium ulcerans MUL_3562   glycerate kinase
Trypanosoma cruzi TcCLB.508741.170   glycerate kinase, putative
Trypanosoma cruzi TcCLB.509139.10   glycerate kinase, putative
Trichomonas vaginalis TVAG_184360   glycerate kinase, putative

Essentiality

TcCLB.509139.10 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu2239 Mycobacterium tuberculosis non-essential nmpdr
b0514 Escherichia coli non-essential goodall
b3124 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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
  • 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
  • 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.
  • 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.
  • 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

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.

User comments

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Gene identifier TcCLB.509139.10 (Trypanosoma cruzi), glycerate kinase, putative
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