Detailed view for PBANKA_0702800

Basic information

TDR Targets ID: 827775
Plasmodium berghei, protein disulfide isomerase
Source Database / ID: 

pI: 5.321 | Length (AA): 482 | MW (Da): 55411 | 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

PF00085   Thioredoxin
PF13848   Thioredoxin-like domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005783   endoplasmic reticulum  
GO:0016853   isomerase activity  
GO:0045454   cell redox homeostasis  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
16 459 4ekz (A) 0 472 29.00 0.0000000022 1 1.23296 0.27
22 481 2b5e (A) 24 504 20.00 0.00000002 1 1.12416 0.49
49 113 1v98 (A) 52 113 35.00 0.000056 0.87 0.565155 -0.43
351 477 2dj3 (A) 5 133 46.00 0 1 0.864585 -0.84
355 459 4ef0 (A) 27 129 30.00 0 1 0.733942 -1.62

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, 4 hs Ring, 16 hs Trophozoite, 22 hs Schizont, Erthyrocytic stages, Female gametocyte, Male gametocyte. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Ookinete. Otto TD
Show/Hide expression data references
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.

Orthologs

Ortholog group members (OG5_126843)

Species Accession Gene Product
Arabidopsis thaliana AT3G54960   protein PDI-like 1-3
Arabidopsis thaliana AT1G77510   protein disulfide isomerase-like 1-2
Arabidopsis thaliana AT1G21750   protein disulfide isomerase-like 1-1
Arabidopsis thaliana AT5G60640   protein disulfide isomerase-like 1-4
Babesia bovis BBOV_IV002330   protein disulfide-isomerase
Brugia malayi Bm1_28935   transglutaminase
Brugia malayi Bm1_45630   probable protein disulfide-isomerase
Brugia malayi Bm1_39250   protein disulphide isomerase
Candida albicans CaO19.12595   one of two genes similar to S. cerevisiae PDI1 (YCL043C) ER protein disulfide isomerase and foldase
Candida albicans CaO19.5130   one of two genes similar to S. cerevisiae PDI1 (YCL043C) ER protein disulfide isomerase and foldase
Candida albicans CaO19_5130   hypothetical protein
Caenorhabditis elegans CELE_H06O01.1   Protein PDI-3
Caenorhabditis elegans CELE_C14B9.2   Protein C14B9.2
Caenorhabditis elegans CELE_C07A12.4   Protein PDI-2, isoform A
Cryptosporidium hominis Chro.60023   protein disulphide isomerase
Cryptosporidium parvum cgd6_120   disulfide-isomerase, signal peptide plus ER retention motif, putative ER protein
Dictyostelium discoideum DDB_G0291434   protein disulfide isomerase
Drosophila melanogaster Dmel_CG6988   Protein disulfide isomerase
Drosophila melanogaster Dmel_CG8983   CG8983 gene product from transcript CG8983-RA
Echinococcus granulosus EgrG_001022300   protein disulfide isomerase A3
Echinococcus granulosus EgrG_000094600   protein disulfide isomerase
Entamoeba histolytica EHI_110350   thioredoxin, putative
Echinococcus multilocularis EmuJ_001022300   protein disulfide isomerase A3
Echinococcus multilocularis EmuJ_000094600   protein disulfide isomerase
Giardia lamblia GL50803_9413   Protein disulfide isomerase PDI2
Homo sapiens ENSG00000167004   protein disulfide isomerase family A, member 3
Homo sapiens ENSG00000185624   prolyl 4-hydroxylase, beta polypeptide
Homo sapiens ENSG00000155660   protein disulfide isomerase family A, member 4
Leishmania braziliensis LbrM.35.7320   protein disulfide isomerase
Leishmania donovani LdBPK_367280.1   protein disulfide isomerase 2
Leishmania infantum LinJ.36.7280   protein disulfide isomerase
Leishmania major LmjF.36.6940   protein disulfide isomerase
Leishmania mexicana LmxM.36.6940   protein disulfide isomerase
Loa Loa (eye worm) LOAG_03754   Pdia4 protein
Loa Loa (eye worm) LOAG_00232   protein disulfide isomerase
Loa Loa (eye worm) LOAG_04451   hypothetical protein
Loa Loa (eye worm) LOAG_10374   transglutaminase
Mus musculus ENSMUSG00000027248   protein disulfide isomerase associated 3
Mus musculus ENSMUSG00000025823   protein disulfide isomerase associated 4
Mus musculus ENSMUSG00000025130   prolyl 4-hydroxylase, beta polypeptide
Neospora caninum NCLIV_011410   protein disulfide isomerase
Oryza sativa 4350002   Os11g0199200
Oryza sativa 4329652   Os02g0554900
Oryza sativa 4335906   Os04g0436300
Oryza sativa 4327971   Os02g0100100
Plasmodium berghei PBANKA_0702800   protein disulfide isomerase
Plasmodium falciparum PF3D7_0827900   protein disulfide isomerase
Plasmodium knowlesi PKNH_1322000   protein disulfide isomerase, putative
Plasmodium vivax PVX_088960   protein disulfide isomerase, putative
Plasmodium yoelii PY00638   protein disulfide isomerase
Saccharomyces cerevisiae YCL043C   protein disulfide isomerase PDI1
Schistosoma japonicum Sjp_0213370   ko:K08056 protein disulfide isomerase family A, member 3, putative
Schistosoma japonicum Sjp_0208190   ko:K09580 prolyl 4-hydroxylase, beta polypeptide, putative
Schistosoma mansoni Smp_056760   protein disulfide-isomerase
Schistosoma mansoni Smp_079770.3   Probable protein disulfide-isomerase ER-60 precursor (ERP60)
Schistosoma mansoni Smp_079770.1   protein disulfide-isomerase er-60 precursor (erp60)
Schmidtea mediterranea mk4.002701.05  
Schmidtea mediterranea mk4.002209.06  
Schmidtea mediterranea mk4.028521.00  
Schmidtea mediterranea mk4.011199.01   Protein disulfide-isomerase
Schmidtea mediterranea mk4.001412.00   Protein disulfide-isomerase
Schmidtea mediterranea mk4.002289.06  
Schmidtea mediterranea mk4.002209.04   Probable protein disulfide-isomerase A4
Schmidtea mediterranea mk4.001314.06  
Schmidtea mediterranea mk4.000707.09   Protein disulfide-isomerase
Schmidtea mediterranea mk4.000032.22   Protein disulfide-isomerase A3
Trypanosoma brucei gambiense Tbg972.10.10050   protein disulfide isomerase,bloodstream- specific protein 2 precursor, putative
Trypanosoma brucei Tb11.v5.0668   protein disulfide isomerase
Trypanosoma congolense TcIL3000_10_7120   protein disulfide isomerase 2
Trypanosoma cruzi TcCLB.507611.370   bloodstream- specific protein 2 precursor
Toxoplasma gondii TGME49_211680   protein disulfide isomerase
Theileria parva TP03_0419   protein disulfide isomerase, putative
Trichomonas vaginalis TVAG_349600   protein disulfide isomerase, putative
Trichomonas vaginalis TVAG_209180   protein disulfide isomerase, putative
Trichomonas vaginalis TVAG_086290   protein disulfide isomerase, putative
Trichomonas vaginalis TVAG_451750   protein disulfide isomerase, putative

Essentiality

PBANKA_0702800 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.8230 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.8230 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.8230 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.8230 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_C07A12.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_C07A12.4 Caenorhabditis elegans larval arrest wormbase
CELE_C07A12.4 Caenorhabditis elegans larval lethal wormbase
CELE_C14B9.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_C14B9.2 Caenorhabditis elegans slow growth wormbase
YCL043C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0702800 this record Plasmodium berghei Essential plasmo
TGME49_211680 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.

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 prolyl 4-hydroxylase, beta polypeptide 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.

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

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Gene identifier PBANKA_0702800 (Plasmodium berghei), protein disulfide isomerase
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