Detailed view for PF3D7_0616200

Basic information

TDR Targets ID: 4513
Plasmodium falciparum, kinetochore protein NDC80, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 5.2314 | Length (AA): 591 | MW (Da): 69875 | Paralog Number: 0

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

Druggability Group : DG1

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

PF03801   HEC/Ndc80p family

Gene Ontology

Mouse over links to read term descriptions.
GO:0016020   membrane  
GO:0005515   protein binding  
GO:0016192   vesicle-mediated transport  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
310 528 1jad (A) 3 241 15.00 0.000045 0.16 0.4 -0.01
52 270 2ve7 (A) 81 1139 18.00 0 1 0.644158 -0.16
198 386 4tql (A) 16 209 30.00 0.0017 0.99 0.622897 -1.1
426 590 4uos (A) 2 167 22.00 0.000032 1 0.748588 -2.19

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 Sporozoite, Male Gametocyte. Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Oocyst, Female Gametocyte. Otto TD Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, Ring. Otto TD Zanghi G
Show/Hide expression data references
  • Zanghi G A Specific PfEMP1 Is Expressed in P. falciparum Sporozoites and Plays a Role in Hepatocyte Infection.
  • 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_128993)

Species Accession Gene Product
Arabidopsis thaliana AT3G54630   HEC/Ndc80 domain-containing protein
Babesia bovis BBOV_IV005330   conserved hypothetical protein
Brugia malayi Bm1_15770   HEC/Ndc80p family protein
Candida albicans CaO19.10345   cytoskeletal structural protein
Candida albicans CaO19.2827   cytoskeletal structural protein
Caenorhabditis elegans CELE_W01B6.9   Protein NDC-80
Cryptosporidium hominis Chro.60474   HEC protein
Cryptosporidium parvum cgd6_4140   coiled coil protein
Dictyostelium discoideum DDB_G0284003   kinetochore protein Ndc80
Echinococcus granulosus EgrG_000442300   kinetochore protein ndc80
Echinococcus multilocularis EmuJ_000442300   kinetochore protein ndc80
Homo sapiens ENSG00000080986   NDC80 kinetochore complex component
Loa Loa (eye worm) LOAG_04509   hypothetical protein
Mus musculus ENSMUSG00000024056   NDC80 homolog, kinetochore complex component (S. cerevisiae)
Neospora caninum NCLIV_026630   HEC/Ndc80p family protein, putative
Oryza sativa 4345797   Os08g0468400
Plasmodium berghei PBANKA_1115700   kinetochore protein NDC80, putative
Plasmodium falciparum PF3D7_0616200   kinetochore protein NDC80, putative
Plasmodium knowlesi PKNH_1133800   kinetochore protein NDC80, putative
Plasmodium vivax PVX_113945   kinetochore protein NDC80, putative
Plasmodium yoelii PY01957   hypothetical protein
Saccharomyces cerevisiae YIL144W   Ndc80p
Schistosoma japonicum Sjp_0022950   Kinetochore protein NDC80 homolog, putative
Schistosoma mansoni Smp_169970   paramyosin
Toxoplasma gondii TGME49_260420   HEC/Ndc80p family protein
Theileria parva TP01_0203   hypothetical protein

Essentiality

PF3D7_0616200 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_W01B6.9 Caenorhabditis elegans embryonic lethal wormbase
CELE_W01B6.9 Caenorhabditis elegans sterile wormbase
YIL144W Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1115700 Plasmodium berghei Essential plasmo
TGME49_260420 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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.
  • 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
  • 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.
  • 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

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
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 PF3D7_0616200 (Plasmodium falciparum), kinetochore protein NDC80, putative
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