Detailed view for PBANKA_1010800

Basic information

TDR Targets ID: 824656
Plasmodium berghei, CCR4-associated factor 16, putative
Source Database / ID: 

pI: 8.204 | Length (AA): 257 | MW (Da): 29681 | 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

PF00005   ABC transporter

Gene Ontology

Mouse over links to read term descriptions.
GO:0016887   ATPase activity  
GO:0005524   ATP binding  

Metabolic Pathways

RNA degradation (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
1 226 5x40 (A) 1 235 24.00 0 1 1.12948 -0.47
1 250 2it1 (A) 1 255 22.00 0 1 1.22726 -0.07
2 251 2awn (A) 2 254 18.00 0 1 0.982263 0.78
2 250 2yyz (A) 2 251 18.00 0 1 1.17237 -0.06
25 80 5b57 (C) 17 69 49.00 0.16 0.12 0.517899 1.04

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 4 hs Ring, 16 hs Trophozoite, Erthyrocytic stages. Otto TD Yeoh LM
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Female gametocyte, Male gametocyte. Yeoh LM
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Gametocyte, Ookinete, 22 hs Schizont. Otto TD
Show/Hide expression data references
  • Otto TD A comprehensive evaluation of rodent malaria parasite genomes and gene expression.
  • Yeoh LM Comparative transcriptomics of female and male gametocytes in Plasmodium berghei and the evolution of sex in alveolates.

Orthologs

Ortholog group members (OG5_129761)

Species Accession Gene Product
Arabidopsis thaliana AT5G02270   ABC transporter I family member 20
Arabidopsis thaliana AT1G03905   ABC transporter I family member 19
Candida albicans CaO19.8018   ATP-binding cassette protein similar to S. cerevisiae CAF16 (YFL028C) ABC ATPase component of CCR4-NOT transcription factor comp
Candida albicans CaO19.388   ATP-binding cassette protein similar to S. cerevisiae CAF16 (YFL028C) ABC ATPase component of CCR4-NOT transcription factor comp
Leishmania braziliensis LbrM.30.1450   ABC transporter, putative
Leishmania donovani LdBPK_301390.1   ATP-binding cassette protein subfamily H, member 3, putative
Leishmania infantum LinJ.30.1390   ATP-binding cassette protein subfamily H, member 3, putative
Leishmania major LmjF.30.1330   ATP-binding cassette protein subfamily H, member 3, putative
Leishmania mexicana LmxM.29.1330   ABC transporter, putative
Neospora caninum NCLIV_070110   hypothetical protein
Oryza sativa 4332655   Os03g0316900
Oryza sativa 4331095   Os02g0810300
Plasmodium berghei PBANKA_1010800   CCR4-associated factor 16, putative
Plasmodium falciparum PF3D7_1434000   CCR4-associated factor 16, putative
Plasmodium knowlesi PKNH_0420600   CCR4-associated factor 16, putative
Plasmodium vivax PVX_084835   CCR4-associated factor 16, putative
Plasmodium yoelii PY06911   NBD-like protein
Saccharomyces cerevisiae YFL028C   putative ATP-binding cassette family ATPase CAF16
Trypanosoma brucei gambiense Tbg972.6.2580   ABC transporter, putative
Trypanosoma brucei Tb927.6.2810   ABC transporter, putative
Trypanosoma cruzi TcCLB.511501.30   ABC transporter, putative
Trypanosoma cruzi TcCLB.511753.100   ABC transporter, putative
Toxoplasma gondii TGME49_305770   ABC transporter, ATP-binding domain-containing protein

Essentiality

PBANKA_1010800 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.2810 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.6.2810 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.6.2810 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.6.2810 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1010800 this record Plasmodium berghei Slow plasmo
TGME49_305770 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
  • 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

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

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 PBANKA_1010800 (Plasmodium berghei), CCR4-associated factor 16, putative
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