Detailed view for PVX_116620

Basic information

TDR Targets ID: 267812
Plasmodium vivax, phosphoribosylpyrophosphate synthetase, putative
Source Database / ID:  PlasmoDB 

pI: 9.8859 | Length (AA): 434 | MW (Da): 48938 | Paralog Number: 0

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

PF13793   N-terminal domain of ribose phosphate pyrophosphokinase
PF14572   Phosphoribosyl synthetase-associated domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0004749   ribose phosphate diphosphokinase activity  
GO:0000287   magnesium ion binding  
GO:0009165   nucleotide biosynthetic process  
GO:0009116   nucleoside metabolic process  

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
114 430 1dku (A) 8 315 51.00 0 1 1.41 -1.51
114 431 2c4k (A) 7 350 36.00 0 1 1.14 -1.45
114 432 3s5j (B) 3 315 48.00 0 1 1.36462 -1.04
114 431 1dkr (A) 8 316 51.00 0 1 1.35952 -1.03

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 intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 24 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intraerythrocytic - 30 hs, intraerythrocytic - 36 hs, intraerythrocytic - 40 hs, intraerythrocytic - 48 hs. Zhu L
Show/Hide expression data references
  • Zhu L New insights into the Plasmodium vivax transcriptome using RNA-Seq.

Orthologs

Ortholog group members (OG5_126730)

Species Accession Gene Product
Arabidopsis thaliana AT2G35390   ribose-phosphate pyrophosphokinase 1
Arabidopsis thaliana AT2G44530   ribose-phosphate pyrophosphokinase 5
Arabidopsis thaliana AT1G32380   ribose-phosphate pyrophosphokinase 2
Babesia bovis BBOV_IV008060   ribose-phosphate pyrophosphokinase, putative
Brugia malayi Bm1_12765   ribose-phosphate diphosphokinase
Candida albicans CaO19.9148   likely phosphoribosyl pyrophosphate synthetase most similar to S. cerevisiae PRS3 (YHL011C) involved in histidine, purine and py
Candida albicans CaO19.12081   likely ribose-phosphate pyrophosphokinase similar to S. cerevisiae PRS4 (YBL068W) and PRS2 (YER099C) which are involved in histi
Candida albicans CaO19.1575   likely phosphoribosyl pyrophosphate synthetase most similar to S. cerevisiae PRS3 (YHL011C) involved in histidine, purine and py
Candida albicans CaO19.4611   likely ribose-phosphate pyrophosphokinase similar to S. cerevisiae PRS4 (YBL068W) and PRS2 (YER099C) which are involved in histi
Caenorhabditis elegans CELE_R151.2   Protein R151.2, isoform C
Dictyostelium discoideum DDB_G0284669   phosphoribosyl pyrophosphate synthetase
Drosophila melanogaster Dmel_CG6767   CG6767 gene product from transcript CG6767-RA
Escherichia coli b1207   phosphoribosylpyrophosphate synthase
Echinococcus granulosus EgrG_000568600   ribose phosphate pyrophosphokinase 1
Entamoeba histolytica EHI_035650   ribose-phosphate pyrophosphokinase, putative
Echinococcus multilocularis EmuJ_000568600   ribose phosphate pyrophosphokinase 1
Giardia lamblia GL50803_21750   Ribose-phosphate pyrophosphokinase
Homo sapiens ENSG00000101911   phosphoribosyl pyrophosphate synthetase 2
Homo sapiens ENSG00000147224   phosphoribosyl pyrophosphate synthetase 1
Homo sapiens ENSG00000229937   phosphoribosyl pyrophosphate synthetase 1-like 1
Leishmania braziliensis LbrM.35.5650   phosphoribosylpyrophosphate synthetase, putative
Leishmania braziliensis LbrM.33.2210   phosphoribosylpyrophosphate synthetase, putative,phosphoribosyl transferase, putative
Leishmania donovani LdBPK_332040.1   phosphoribosylpyrophosphate synthetase, putative
Leishmania donovani LdBPK_365630.1   phosphoribosylpyrophosphate synthetase, putative
Leishmania infantum LinJ.36.5630   phosphoribosylpyrophosphate synthetase, putative
Leishmania infantum LinJ.33.2040   phosphoribosylpyrophosphate synthetase, putative,phosphoribosyl transferase, putative
Leishmania major LmjF.36.5390   phosphoribosylpyrophosphate synthetase, putative
Leishmania major LmjF.33.1930   phosphoribosylpyrophosphate synthetase, putative,phosphoribosyl transferase, putative
Leishmania mexicana LmxM.36.5390   phosphoribosylpyrophosphate synthetase, putative
Leishmania mexicana LmxM.32.1930   phosphoribosylpyrophosphate synthetase, putative,phosphoribosyl transferase, putative
Loa Loa (eye worm) LOAG_06797   ribose-phosphate diphosphokinase
Loa Loa (eye worm) LOAG_15004   hypothetical protein
Mycobacterium leprae ML0248c   Probable ribose-phosphate pyrophosphokinase PrsA (Phosphoribosyl pyrophosphate synthetase) (PRPP synthetase)
Mus musculus ENSMUSG00000092305   phosphoribosyl pyrophosphate synthetase 1-like 1
Mus musculus ENSMUSG00000025742   phosphoribosyl pyrophosphate synthetase 2
Mus musculus ENSMUSG00000031432   phosphoribosyl pyrophosphate synthetase 1
Mus musculus 328099   phosphoribosyl pyrophosphate synthetase 1-like 3
Mycobacterium tuberculosis Rv1017c   Probable ribose-phosphate pyrophosphokinase PrsA (phosphoribosyl pyrophosphate synthetase) (PRPP synthetase)
Mycobacterium ulcerans MUL_4638   ribose-phosphate pyrophosphokinase
Neospora caninum NCLIV_012230   Ribose-phosphate pyrophosphokinase (EC 2.7.6.1), related
Oryza sativa 4341535   Os06g0617800
Oryza sativa 4328168   Os02g0127700
Plasmodium berghei PBANKA_1340300   phosphoribosylpyrophosphate synthetase, putative
Plasmodium falciparum PF3D7_1325100   phosphoribosylpyrophosphate synthetase
Plasmodium knowlesi PKNH_1203700   phosphoribosylpyrophosphate synthetase, putative
Plasmodium vivax PVX_116620   phosphoribosylpyrophosphate synthetase, putative
Plasmodium yoelii PY00920   phosphoribosylpyrophosphate synthetase
Saccharomyces cerevisiae YBL068W   ribose phosphate diphosphokinase subunit PRS4
Saccharomyces cerevisiae YER099C   ribose phosphate diphosphokinase subunit PRS2
Saccharomyces cerevisiae YHL011C   ribose phosphate diphosphokinase subunit PRS3
Schistosoma japonicum Sjp_0208510   ko:K00948 ribose-phosphate pyrophosphokinase [EC2.7.6.1], putative
Schistosoma mansoni Smp_022090   ribose-phosphate pyrophosphokinase 1
Schmidtea mediterranea mk4.034082.00  
Schmidtea mediterranea mk4.001666.04  
Schmidtea mediterranea mk4.006695.00  
Schmidtea mediterranea mk4.033315.01   Putative ribose-phosphate pyrophosphokinase 1
Schmidtea mediterranea mk4.069215.00  
Schmidtea mediterranea mk4.001288.04  
Schmidtea mediterranea mk4.033315.02  
Trypanosoma brucei gambiense Tbg972.11.3350   phosphoribosylpyrophosphate synthetase, putative
Trypanosoma brucei gambiense Tbg972.10.11530   phosphoribosylpyrophosphate synthetase, putative
Trypanosoma brucei Tb927.10.9430   phosphoribosylpyrophosphate synthetase, putative
Trypanosoma brucei Tb927.11.3030   phosphoribosylpyrophosphate synthetase, putative
Trypanosoma congolense TcIL3000.11.2790   phosphoribosylpyrophosphate synthetase, putative
Trypanosoma congolense TcIL3000_10_8190   phosphoribosylpyrophosphate synthetase, putative
Trypanosoma cruzi TcCLB.508717.30   phosphoribosylpyrophosphate synthetase, putative
Trypanosoma cruzi TcCLB.510431.250   phosphoribosylpyrophosphate synthetase, putative
Trypanosoma cruzi TcCLB.506839.80   phosphoribosylpyrophosphate synthetase, putative
Toxoplasma gondii TGME49_220100   phosphoribosylpyrophosphate synthetase
Treponema pallidum TP0294   phosphoribosylpyrophosphate synthetase
Theileria parva TP01_0994   phosphoribosylpyrophosphate synthetase, putative
Trichomonas vaginalis TVAG_357180   ribose-phosphate pyrophosphokinase, putative
Trichomonas vaginalis TVAG_498000   Ribose-phosphate pyrophosphokinase, putative
Trichomonas vaginalis TVAG_005640   Ribose-phosphate pyrophosphokinase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0103   phosphoribosylpyrophosphate synthetase

Essentiality

PVX_116620 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.02.0530 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.0530 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb11.02.0530 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.02.0530 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.10.9430 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.9430 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.9430 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.9430 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b1207 Escherichia coli essential goodall
CELE_R151.2 Caenorhabditis elegans embryonic lethal wormbase
TGME49_220100 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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

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

  • Assay for Phosphoribosyl-Pyrophosphate Synthetase (2.7.6.1 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier PVX_116620 (Plasmodium vivax), phosphoribosylpyrophosphate synthetase, putative
Title for this comment
Comment