Detailed view for PBANKA_1125600

Basic information

TDR Targets ID: 827257
Plasmodium berghei, pyruvate kinase, putative
Source Database / ID: 

pI: 7.1256 | Length (AA): 511 | MW (Da): 55547 | 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

PF00224   Pyruvate kinase, barrel domain
PF02887   Pyruvate kinase, alpha/beta domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0030955   potassium ion binding  
GO:0004743   pyruvate kinase activity  
GO:0003824   catalytic activity  
GO:0000287   magnesium ion binding  
GO:0006096   glycolysis  

Structural information

Modbase 3D models:

There are 2 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
10 511 3khd (A) 19 520 91.00 0 1 2.05589 -1.02
10 510 3khd (C) 19 519 92.00 0 1 1.65623 0.23

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 Gametocyte, Ookinete, 4 hs Ring, 16 hs Trophozoite, 22 hs Schizont, Erthyrocytic stages, Female gametocyte, Male 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_126685)

Species Accession Gene Product
Arabidopsis thaliana AT3G55810   pyruvate kinase
Arabidopsis thaliana AT5G63680   pyruvate kinase
Arabidopsis thaliana AT3G55650   pyruvate kinase
Arabidopsis thaliana AT5G52920   plastidial pyruvate kinase 2
Arabidopsis thaliana AT5G08570   pyruvate kinase
Arabidopsis thaliana AT3G25960   pyruvate kinase
Arabidopsis thaliana AT3G04050   pyruvate kinase
Arabidopsis thaliana AT1G32440   plastidial pyruvate kinase 3
Arabidopsis thaliana AT5G56350   pyruvate kinase
Arabidopsis thaliana AT4G26390   probable pyruvate kinase
Babesia bovis BBOV_III007000   pyruvate kinase, putative
Brugia malayi Bm1_35910   Pyruvate kinase, M2 isozyme
Brugia malayi Bm1_35895   Pyruvate kinase, muscle isozyme
Candida albicans CaO19.11059   pyruvate kinase
Candida albicans CaO19.3575   pyruvate kinase
Caenorhabditis elegans CELE_F25H5.3   Protein PYK-1, isoform A
Cryptosporidium hominis Chro.10234   pyruvate kinase
Cryptosporidium parvum cgd1_2040   pyruvate kinase
Chlamydia trachomatis CT_332   pyruvate kinase
Dictyostelium discoideum DDB_G0283247   phosphoenolpyruvate kinase
Drosophila melanogaster Dmel_CG7070   Pyruvate kinase
Escherichia coli b1854   pyruvate kinase II
Escherichia coli b1676   pyruvate kinase I
Echinococcus granulosus EgrG_001001900   pyruvate kinase
Echinococcus granulosus EgrG_001078100   pyruvate kinase
Entamoeba histolytica EHI_098420   pyruvate kinase, putative
Echinococcus multilocularis EmuJ_001078000   pyruvate kinase
Echinococcus multilocularis EmuJ_001078100   pyruvate kinase
Echinococcus multilocularis EmuJ_001001900   pyruvate kinase
Giardia lamblia GL50803_17143   Pyruvate kinase
Homo sapiens ENSG00000143627   pyruvate kinase, liver and RBC
Homo sapiens ENSG00000067225   pyruvate kinase, muscle
Leishmania braziliensis LbrM.34.0010   pyruvate kinase
Leishmania braziliensis LbrM.34.0040   pyruvate kinase
Leishmania braziliensis LbrM.34.0060   pyruvate kinase
Leishmania donovani LdBPK_055450.1   pyruvate kinase, putative
Leishmania infantum LinJ.35.5450   pyruvate kinase
Leishmania infantum LinJ.35.0030   pyruvate kinase
Leishmania major LmjF.35.0030   pyruvate kinase
Leishmania major LmjF.35.0020   pyruvate kinase
Leishmania mexicana LmxM.34.0030   pyruvate kinase, putative
Leishmania mexicana LmxM.34.0020   pyruvate kinase
Loa Loa (eye worm) LOAG_08496   pyruvate kinase
Loa Loa (eye worm) LOAG_04101   pyruvate kinase
Loa Loa (eye worm) LOAG_11357   hypothetical protein
Loa Loa (eye worm) LOAG_12831   pyruvate kinase
Loa Loa (eye worm) LOAG_12029   hypothetical protein
Loa Loa (eye worm) LOAG_14898   pyruvate kinase-PB
Mycobacterium leprae ML1277   Probable pyruvate kinase PykA
Mus musculus ENSMUSG00000041237   pyruvate kinase liver and red blood cell
Mus musculus ENSMUSG00000032294   pyruvate kinase, muscle
Mycobacterium tuberculosis Rv1617   Probable pyruvate kinase PykA
Mycobacterium ulcerans MUL_1598   pyruvate kinase
Neospora caninum NCLIV_015200   Pyruvate kinase (EC 2.7.1.40), related
Oryza sativa 4324263   Os01g0276700
Oryza sativa 4349454   Os10g0571200
Oryza sativa 4337406   Os04g0677500
Onchocerca volvulus OVOC593   Pyruvate kinase homolog
Onchocerca volvulus OVOC9802   Pyruvate kinase homolog
Onchocerca volvulus OVOC589   Pyruvate kinase homolog
Plasmodium berghei PBANKA_1125600   pyruvate kinase, putative
Plasmodium falciparum PF3D7_0626800   pyruvate kinase
Plasmodium knowlesi PKNH_1123000   pyruvate kinase, putative
Plasmodium vivax PVX_114445   pyruvate kinase, putative
Plasmodium yoelii PY04645   pyruvate kinase
Saccharomyces cerevisiae YAL038W   pyruvate kinase CDC19
Saccharomyces cerevisiae YOR347C   pyruvate kinase PYK2
Schistosoma japonicum Sjp_0201440   ko:K00873 pyruvate kinase [EC2.7.1.40], putative
Schistosoma japonicum Sjp_0110140   Pyruvate kinase isozyme R, putative
Schistosoma mansoni Smp_065610.2   pyruvate kinase
Schistosoma mansoni Smp_065610.1   pyruvate kinase
Schmidtea mediterranea mk4.004797.01   Pyruvate kinase
Schmidtea mediterranea mk4.015045.03   Pyruvate kinase
Schmidtea mediterranea mk4.001483.03   Pyruvate kinase
Schmidtea mediterranea mk4.008681.02   Pyruvate kinase
Schmidtea mediterranea mk4.004845.00  
Schmidtea mediterranea mk4.015411.00  
Schmidtea mediterranea mk4.005985.00   Pyruvate kinase
Schmidtea mediterranea mk4.008681.00   Pyruvate kinase
Schmidtea mediterranea mk4.015045.02   Pyruvate kinase
Schmidtea mediterranea mk4.030887.00   Pyruvate kinase
Schmidtea mediterranea mk4.005660.00   Pyruvate kinase
Schmidtea mediterranea mk4.000329.00   Pyruvate kinase
Schmidtea mediterranea mk4.008681.01   Pyruvate kinase
Schmidtea mediterranea mk4.004797.06   Pyruvate kinase
Schmidtea mediterranea mk4.011245.01   Pyruvate kinase
Trypanosoma brucei gambiense Tbg972.10.16520   pyruvate kinase 1, putative
Trypanosoma brucei gambiense Tbg972.10.16510   pyruvate kinase 1, putative
Trypanosoma brucei Tb927.10.14140   pyruvate kinase 1
Trypanosoma brucei Tb11.v5.0605   pyruvate kinase 1, putative
Trypanosoma congolense TcIL3000_10_12020   pyruvate kinase 1, putative
Trypanosoma cruzi TcCLB.511281.60   pyruvate kinase 2, putative
Trypanosoma cruzi TcCLB.507993.390   pyruvate kinase 2, putative
Toxoplasma gondii TGME49_256760   pyruvate kinase PyK1
Theileria parva TP04_0607   pyruvate kinase, putative
Trichomonas vaginalis TVAG_373720   pyruvate kinase, putative
Trichomonas vaginalis TVAG_015950   pyruvate kinase, putative

Essentiality

PBANKA_1125600 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.14140 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.14140 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.14140 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.14140 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b1676 Escherichia coli non-essential goodall
b1854 Escherichia coli non-essential goodall
CELE_F25H5.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_F25H5.3 Caenorhabditis elegans larval lethal wormbase
CELE_F25H5.3 Caenorhabditis elegans slow growth wormbase
YAL038W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1125600 this record Plasmodium berghei Essential plasmo
TGME49_256760 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
  • 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.
  • 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
  • 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

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
Homo sapiens pyruvate kinase, liver and RBC Compounds References
Homo sapiens pyruvate kinase, muscle Compounds References
Staphylococcus aureus (strain MRSA252) Pyruvate kinase Compounds References
Leishmania mexicana pyruvate kinase, putative Compounds References
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.

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Gene identifier PBANKA_1125600 (Plasmodium berghei), pyruvate kinase, putative
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