Detailed view for PF3D7_0107000

Basic information

TDR Targets ID: 3191
Plasmodium falciparum, centrin-1
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 4.5108 | Length (AA): 168 | MW (Da): 19599 | Paralog Number: 0

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

Druggability Group : DG2

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

PF13499   EF-hand domain pair
PF13833   EF-hand domain pair

Gene Ontology

Mouse over links to read term descriptions.
GO:0005813   centrosome  
GO:0005509   calcium ion binding  
GO:0007067   mitosis  

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
1 166 1fpw (A) 1 177 17.00 0 1 1.1 0.08
20 168 2ggm (A) 24 172 79.00 0 1 1.88 -1.48
99 166 1qx2 (A) 3 74 41.00 0.00000041 1 1.06 -2.15
21 168 3kf9 (A) 21 168 83.00 0 1 1.95025 -1.52
95 168 1oqp (A) 96 169 73.00 0 1 1.47578 -2.18

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 intra-erythrocytic - 32 hs, gametocyte, early schizont, late schizont, Oocyst, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, merozoite, early trophozoite, late trophozoite, Ring, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs. Otto TD
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.

Orthologs

Ortholog group members (OG5_128884)

Species Accession Gene Product
Arabidopsis thaliana AT3G50360   centrin2
Babesia bovis BBOV_III003480   EF hand domain containing protein
Cryptosporidium hominis Chro.30159   centrin
Cryptosporidium parvum cgd3_1270   centrin, putative
Drosophila melanogaster Dmel_CG17493   CG17493 gene product from transcript CG17493-RB
Echinococcus granulosus EgrG_000843000   centrin 2
Echinococcus granulosus EgrG_000964800   Centrin 1
Echinococcus granulosus EgrG_000968500   centrin 2
Echinococcus multilocularis EmuJ_000964800   Centrin 1
Echinococcus multilocularis EmuJ_000968500   centrin 2
Echinococcus multilocularis EmuJ_000843000   centrin 2
Giardia lamblia GL50803_6744   Centrin
Homo sapiens 1069   centrin, EF-hand protein, 2
Homo sapiens 1068   centrin, EF-hand protein, 1
Leishmania braziliensis LbrM.07.0780   centrin, putative,caltractin, putative
Leishmania donovani LdBPK_070790.1   centrin, putative
Leishmania infantum LinJ.07.0790   centrin, putative,caltractin, putative
Leishmania major LmjF.07.0710   centrin, putative,caltractin, putative
Leishmania mexicana LmxM.07.0710   centrin, putative,caltractin, putative
Mus musculus ENSMUSG00000031347   centrin 2
Mus musculus 26369   centrin 1
Neospora caninum NCLIV_063750   Calmodulin, related
Oryza sativa 4343922   Os07g0618800
Plasmodium berghei PBANKA_0206300   centrin-1, putative
Plasmodium falciparum PF3D7_0107000   centrin-1
Plasmodium knowlesi PKNH_0206500   centrin-1, putative
Plasmodium vivax PVX_081420   centrin-1, putative
Schistosoma japonicum Sjp_0011490   Centrin-1, putative
Schistosoma mansoni Smp_134950   centrin-related
Schmidtea mediterranea mk4.004035.00   Uncharacterized calcium-binding protein
Schmidtea mediterranea mk4.003529.04  
Schmidtea mediterranea mk4.000308.09  
Schmidtea mediterranea mk4.000114.07  
Schmidtea mediterranea mk4.001420.01  
Trypanosoma brucei gambiense Tbg972.8.645   centrin, putative,caltractin, putative
Trypanosoma brucei Tb927.8.1080   centrin, putative
Trypanosoma congolense TcIL3000_8_680   centrin, putative
Trypanosoma cruzi TcCLB.503727.10   centrin, putative
Trypanosoma cruzi TcCLB.506401.90   centrin, putative
Toxoplasma gondii TGME49_247230   centrin
Theileria parva TP03_0058   centrin, putative
Trichomonas vaginalis TVAG_238650   calmodulin, putative
Trichomonas vaginalis TVAG_311320   calmodulin, putative
Trichomonas vaginalis TVAG_311330   caltractin, putative

Essentiality

PF3D7_0107000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.1080 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.8.1080 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.8.1080 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.8.1080 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0206300 Plasmodium berghei Essential plasmo
TGME49_247230 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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
  • 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

Druggability index (range: 0 to 1): 0.5

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
Bos taurus Calmodulin 149 aa 52.1% 144 aa Compounds References
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 PF3D7_0107000 (Plasmodium falciparum), centrin-1
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