Detailed view for PF3D7_1102400

Basic information

TDR Targets ID: 1515
Plasmodium falciparum, phosphopantothenate--cysteine ligase, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.0354 | Length (AA): 660 | MW (Da): 78535 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0003674   molecular_function  
GO:0008150   biological_process  
GO:0005575   cellular_component  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 6 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
198 327 1p9o (A) 33 167 32.00 0.000000000064 1 0.63 -0.63
455 657 2gk4 (A) 2 228 17.00 0 0.18 0.26 -0.01
3 166 4u5a (C) 50 239 22.00 0.03 0.11 0.371185 -0.12
201 327 1p9o (A) 36 167 32.00 0.0000035 0.99 0.506124 0.35
26 213 4u5a (A) 48 240 22.00 0.028 0.02 0.378748 -0.11
201 327 1p9o (A) 36 167 32.00 0.000015 1 0.504324 0.39

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 intra-erythrocytic - 32 hs, Female Gametocyte. Otto TD Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, gametocyte, sporozoite, early ring, early schizont, early trophozoite, late ring, late schizont, late trophozoite, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Ring. Zanghi G
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Oocyst, Male Gametocyte. Zanghi G Lasonder E
Show/Hide expression data references
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.

Orthologs

Ortholog group members (OG5_128432)

Species Accession Gene Product
Arabidopsis thaliana AT1G12350   phosphopantothenate--cysteine ligase 1
Arabidopsis thaliana AT5G02080   DNA / pantothenate metabolism flavoprotein
Babesia bovis BBOV_III006270   DNA / pantothenate metabolism flavoprotein
Brugia malayi Bm1_45070   DNA / pantothenate metabolism flavoprotein
Candida albicans CaO19.7357   similar to S. cerevisiae YIL083C
Cryptosporidium hominis Chro.40256   ENSANGP00000013327
Cryptosporidium parvum cgd4_2250   putative phosphopantothenoylcysteine synthetase
Dictyostelium discoideum DDB_G0282611   phosphopantothenatecysteine ligase
Drosophila melanogaster Dmel_CG5629   Phosphopantothenoylcysteine synthetase
Echinococcus granulosus EgrG_000906400   yil083c protein
Echinococcus multilocularis EmuJ_000906400   yil083c protein
Homo sapiens 79717   phosphopantothenoylcysteine synthetase
Leishmania braziliensis LbrM.25.1460   hypothetical protein, conserved
Leishmania donovani LdBPK_251980.1   phosphopantothenate--cysteine ligase, putative
Leishmania infantum LinJ.25.1980   hypothetical protein, conserved
Leishmania major LmjF.25.1900   hypothetical protein, conserved
Leishmania mexicana LmxM.25.1900   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_01280   DNA/pantothenate metabolism flavoprotein
Mus musculus ENSMUSG00000028636   phosphopantothenoylcysteine synthetase
Oryza sativa 4344795   Os08g0176100
Oryza sativa 4329749   Os02g0575200
Plasmodium berghei PBANKA_0613600   phosphopantothenate--cysteine ligase, putative
Plasmodium falciparum PF3D7_0412300   phosphopantothenoylcysteine synthetase, putative
Plasmodium falciparum PF3D7_1102400   phosphopantothenate--cysteine ligase, putative
Plasmodium knowlesi PKNH_0310500   phosphopantothenate--cysteine ligase, putative
Plasmodium vivax PVX_000630   phosphopantothenoylcysteine synthetase, putative
Plasmodium yoelii PY05326   hypothetical protein
Saccharomyces cerevisiae YIL083C   phosphopantothenate--cysteine ligase CAB2
Schistosoma japonicum Sjp_0215850   ko:K01922 phosphopantothenate-cysteine ligase [EC6.3.2.5], putative
Schistosoma japonicum Sjp_0312350   IPR007085,DNA/pantothenate metabolism flavoprotein, C-terminal,domain-containing
Schistosoma japonicum Sjp_0115150   IPR007085,DNA/pantothenate metabolism flavoprotein, C-terminal,domain-containing
Schistosoma mansoni Smp_131090   cornichon
Schmidtea mediterranea mk4.000616.08   PhosphopantothenateALQ-cysteine ligase
Trypanosoma brucei gambiense Tbg972.3.1890   hypothetical protein, conserved
Trypanosoma brucei Tb927.3.1970   phosphopantothenoylcysteine synthetase, putative
Trypanosoma congolense TcIL3000_3_1070   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.504045.80   hypothetical protein, conserved
Toxoplasma gondii TGME49_318600   DNA /pantothenate metabolism flavoprotein

Essentiality

PF3D7_1102400 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.1970 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.1970 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.1970 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.1970 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
YIL083C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0613600 Plasmodium berghei Dispensable plasmo
TGME49_318600 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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

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): 0.1

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.

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User comments

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Gene identifier PF3D7_1102400 (Plasmodium falciparum), phosphopantothenate--cysteine ligase, putative
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