Detailed view for LmjF.27.1810

Basic information

TDR Targets ID: 28680
Leishmania major, glycosomal phosphoenolpyruvate carboxykinase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.0721 | Length (AA): 525 | MW (Da): 58224 | 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

PF01293   Phosphoenolpyruvate carboxykinase

Gene Ontology

Mouse over links to read term descriptions.
GO:0004612   phosphoenolpyruvate carboxykinase (ATP) activity  
GO:0017076   purine nucleotide binding  
GO:0005524   ATP binding  
GO:0004611   phosphoenolpyruvate carboxykinase activity  
GO:0006094   gluconeogenesis  

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
2 525 1khb (A) 40 622 15.00 0 1 0.98 0.04
2 523 1ii2 (A) 2 523 81.00 0 1 2.06 -2.13
3 523 1ii2 (A) 3 523 81.00 0 1 2.05628 -1.7

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
Mid 40-60% percentile metacyclic. Fernandes MC
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile amastigotes. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_128435)

Species Accession Gene Product
Arabidopsis thaliana AT4G37870   phosphoenolpyruvate carboxykinase [ATP]
Arabidopsis thaliana AT5G65690   phosphoenolpyruvate carboxykinase 2
Babesia bovis BBOV_I003550   phosphoenolpyruvate carboxykinase, putative
Candida albicans CaO19.7514   phosphoenolpyruvate carboxykinase similar to S. cerevisiae PCK1 (YKR097W)
Dictyostelium discoideum DDB_G0271678   phosphoenolpyruvate carboxykinase
Escherichia coli b3403   phosphoenolpyruvate carboxykinase
Leishmania braziliensis LbrM.27.1940   glycosomal phosphoenolpyruvate carboxykinase, putative
Leishmania braziliensis LbrM.27.1930   glycosomal phosphoenolpyruvate carboxykinase, putative
Leishmania braziliensis LbrM.27.1920   glycosomal phosphoenolpyruvate carboxykinase, putative
Leishmania donovani LdBPK_271710.1   Phosphoenolpyruvate carboxykinase [ATP], glycosomal
Leishmania donovani LdBPK_072500.1   glycosomal phosphoenolpyruvate carboxykinase, putative
Leishmania infantum LinJ.27.1710   glycosomal phosphoenolpyruvate carboxykinase, putative
Leishmania infantum LinJ.27.2500   glycosomal phosphoenolpyruvate carboxykinase, putative
Leishmania major LmjF.27.1810   glycosomal phosphoenolpyruvate carboxykinase, putative
Leishmania major LmjF.27.1805   glycosomal phosphoenolpyruvate carboxykinase, putative
Leishmania mexicana LmxM.27.1810   glycosomal phosphoenolpyruvate carboxykinase, putative
Leishmania mexicana LmxM.27.1807  
Leishmania mexicana LmxM.27.1805   glycosomal phosphoenolpyruvate carboxykinase, putative
Neospora caninum NCLIV_041900   Phosphoenolpyruvate carboxykinase (ATP) (EC 4.1.1.49), related
Oryza sativa 9271683   Os10g0204300
Oryza sativa 4348268   Os10g0204400
Oryza sativa 4332293   Os03g0255500
Plasmodium berghei PBANKA_1355900   phosphoenolpyruvate carboxykinase, putative
Plasmodium falciparum PF3D7_1342800   phosphoenolpyruvate carboxykinase
Plasmodium knowlesi PKNH_1258600   phosphoenolpyruvate carboxykinase, putative
Plasmodium vivax PVX_083035   phosphoenolpyruvate carboxykinase, putative
Plasmodium yoelii PY01233   phosphoenolpyruvate carboxykinase
Saccharomyces cerevisiae YKR097W   phosphoenolpyruvate carboxykinase PCK1
Trypanosoma brucei gambiense Tbg.972.2.2340   glycosomal phosphoenolpyruvate carboxykinase,glycosomal protein P60
Trypanosoma brucei Tb927.2.4210   Phosphoenolpyruvate carboxykinase [ATP], glycosomal
Trypanosoma congolense TcIL3000_2_690   Phosphoenolpyruvate carboxykinase [ATP], glycosomal
Trypanosoma congolense TcIL3000_2_700   Phosphoenolpyruvate carboxykinase [ATP], glycosomal
Trypanosoma cruzi TcCLB.508441.20   Phosphoenolpyruvate carboxykinase [ATP], glycosomal
Trypanosoma cruzi TcCLB.507547.90   glycosomal protein P60
Toxoplasma gondii TGME49_289650   PEP-carboxykinase I
Theileria parva TP01_0495   phosphoenolpyruvate carboxykinase, putative

Essentiality

LmjF.27.1810 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.2.4210 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.2.4210 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.2.4210 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.2.4210 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b3403 Escherichia coli non-essential goodall
PBANKA_1355900 Plasmodium berghei Dispensable plasmo
TGME49_289650 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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

Druggability index (range: 0 to 1): 0.2

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

  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in An enzyme with this EC number or name or sequence has been assayed in Leishmania mexicana mexicana ( 1 )

Reagent availability

  • Reagent:
  • Target Type Source Notes
    LmjF.27.1810 purified protein BRENDA A protein with this EC number or name or sequence has been purified from A protein with this EC number or name or sequence has been purified from Leishmania mexicana mexicana ( 1 )

Bibliographic References

5 literature references were collected for this gene.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier LmjF.27.1810 (Leishmania major), glycosomal phosphoenolpyruvate carboxykinase, putative
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