Detailed view for PVX_122075

Basic information

TDR Targets ID: 265693
Plasmodium vivax, cyclin 4, putative
Source Database / ID:  PlasmoDB 

pI: 8.7506 | Length (AA): 275 | MW (Da): 32652 | 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

PF00134   Cyclin, N-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
3 275 2ivx (A) 8 258 26.00 0 1 1.29 -1.36
3 273 2ivx (A) 9 256 23.00 0 1 1.21205 -0.35
15 264 2i53 (A) 34 262 34.00 0 1 1.17129 -0.12

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
Mid 40-60% percentile intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 24 hs, intraerythrocytic - 30 hs, intraerythrocytic - 36 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile 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_128974)

Species Accession Gene Product
Arabidopsis thaliana AT2G26430   ania-6a type arginine-rich cyclin
Babesia bovis BBOV_IV006560   cyclin 4
Brugia malayi Bm1_55065   LOC443688 protein
Caenorhabditis elegans CELE_C52E4.6   Protein CYL-1, isoform A
Dictyostelium discoideum DDB_G0285553   hypothetical protein
Drosophila melanogaster Dmel_CG16903   CG16903 gene product from transcript CG16903-RA
Echinococcus granulosus EgrG_000439400   Cyclin L1
Echinococcus multilocularis EmuJ_000439400   Cyclin L1
Homo sapiens ENSG00000221978   cyclin L2
Homo sapiens ENSG00000163660   cyclin L1
Loa Loa (eye worm) LOAG_06815   hypothetical protein
Mus musculus ENSMUSG00000027829   cyclin L1
Mus musculus ENSMUSG00000029068   cyclin L2
Neospora caninum NCLIV_040480   hypothetical protein
Oryza sativa 4325450   Os01g0377500
Onchocerca volvulus OVOC6931   Cyclin L homolog
Plasmodium berghei PBANKA_1403200   cyclin, putative
Plasmodium falciparum PF3D7_1304700   cyclin
Plasmodium knowlesi PKNH_1404900   cyclin 4, putative
Plasmodium vivax PVX_122075   cyclin 4, putative
Plasmodium yoelii PY00225   Cyclin, putative
Schistosoma japonicum Sjp_0005500   Cyclin-L2, putative
Schistosoma mansoni Smp_039670   cyclin l
Schmidtea mediterranea mk4.000958.08   Cyclin L
Toxoplasma gondii TGME49_264690   cyclin 4, putative
Theileria parva TP01_1216   cyclin, putative

Essentiality

PVX_122075 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_C52E4.6 Caenorhabditis elegans adult lethal wormbase
CELE_C52E4.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_C52E4.6 Caenorhabditis elegans larval arrest wormbase
CELE_C52E4.6 Caenorhabditis elegans larval lethal wormbase
CELE_C52E4.6 Caenorhabditis elegans slow growth wormbase
CELE_C52E4.6 Caenorhabditis elegans sterile wormbase
PBANKA_1403200 Plasmodium berghei Essential plasmo
TGME49_264690 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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

Druggability index (range: 0 to 1): 0.3

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.

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_122075 (Plasmodium vivax), cyclin 4, putative
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