Detailed view for PVX_123445

Basic information

TDR Targets ID: 265734
Plasmodium vivax, cyclophilin, putative
Source Database / ID:  PlasmoDB 

pI: 9.5469 | Length (AA): 276 | MW (Da): 31940 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG5

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

PF00160   Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD

Gene Ontology

Mouse over links to read term descriptions.
GO:0000413   protein peptidyl-prolyl isomerization  
GO:0003755   peptidyl-prolyl cis-trans isomerase activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 8 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
50 250 1ihg (A) 4 218 33.00 0 1 1.2 -1.07
60 223 1xo7 (A) 4 165 44.00 0 1 1.24 -1.77
61 224 2gw2 (A) 7 177 38.00 0 1 1.15 -1.91
31 144 2fby (A) 79 204 28.00 0.66 0.12 0.302743 1.54
50 231 1ihg (A) 4 191 34.00 0 1 1.14582 -0.83
57 204 1a58 (A) 2 155 32.00 0.00044 1 0.939232 -0.36
58 222 2esl (A) 34 197 40.00 0.000000000011 1 1.17423 -1.23
59 224 1qng (A) 2 171 42.00 0 1 1.20485 -1.1

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
Lower 20-40% percentile intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 24 hs, 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_147406)

Species Accession Gene Product
Babesia bovis BBOV_I004490   peptidyl-prolyl cis-trans isomerase, cyclophilin-type
Neospora caninum NCLIV_025320   cyclophilin, putative
Plasmodium berghei PBANKA_1431000   peptidyl-prolyl cis-trans isomerase, putative
Plasmodium falciparum PF3D7_1215200   peptidyl-prolyl cis-trans isomerase
Plasmodium knowlesi PKNH_1434700   peptidyl-prolyl cis-trans isomerase, putative
Plasmodium vivax PVX_123445   cyclophilin, putative
Plasmodium yoelii PY02749   peptidyl-prolyl cis-trans isomerase, cyclophilin-type, putative
Toxoplasma gondii TGME49_262520   cyclophilin, putative
Theileria parva TP01_0191   cyclophilin, putative

Essentiality

PVX_123445 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_1431000 Plasmodium berghei Essential plasmo
TGME49_262520 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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

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
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus Cyclophilin A 164 aa 37.0% 165 aa Compounds References
Plasmodium falciparum peptidyl-prolyl cis-trans isomerase 171 aa 42.3% 168 aa Compounds References
Obtained from network model
No druggable targets predicted through repurposing network model

Assayability

Assay information

  • Assay for FK-Binding Protein Peptidyl-Prolyl Isomerase Activity (5.2.1.8 ) 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

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Gene identifier PVX_123445 (Plasmodium vivax), cyclophilin, putative
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