Detailed view for PF3D7_0507700

Basic information

TDR Targets ID: 4108
Plasmodium falciparum, nuclear protein localization protein 4, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 6.8885 | Length (AA): 531 | MW (Da): 62575 | 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

PF05020   NPL4 family, putative zinc binding region
PF05021   NPL4 family
PF11543   Nuclear pore localisation protein NPL4

Gene Ontology

Mouse over links to read term descriptions.
GO:0005515   protein binding  
GO:0006511   ubiquitin-dependent protein catabolic process  

Structural information

Modbase 3D models:

There are 2 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 79 2kan (A) 15 88 24.00 0.000062 1 0.554509 -1.22
240 366 2p8r (A) 2101 2213 30.00 0.24 0.77 0.497171 -0.06

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 - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, Oocyst, Sporozoite. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, sporozoite, early ring, early schizont, early trophozoite, late ring, late trophozoite, Ring, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile gametocyte. PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile late schizont. PlasmoDB
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.
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • 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_128565)

Species Accession Gene Product
Arabidopsis thaliana AT2G47970   Nuclear pore localisation protein NPL4
Arabidopsis thaliana AT3G63000   NPL4-like protein 1
Babesia bovis BBOV_II006090   NPL4 family protein
Brugia malayi Bm1_17260   NPL4 family protein
Candida albicans CaO19.9970   nuclear pore-associated protein
Candida albicans CaO19.2434   nuclear pore-associated protein
Caenorhabditis elegans CELE_F59E12.5   Protein NPL-4.2, isoform B
Caenorhabditis elegans CELE_F59E12.4   Protein NPL-4.1, isoform B
Cryptosporidium hominis Chro.70227   hypothetical protein
Cryptosporidium parvum cgd7_1970   nuclear pore associated protein (NLP4) with N-terminal ubiquitin domain
Dictyostelium discoideum DDB_G0290227   nuclear protein localization 4
Drosophila melanogaster Dmel_CG4673   Npl4 ortholog
Echinococcus granulosus EgrG_001148600   nuclear protein localization protein 4
Entamoeba histolytica EHI_026450   hypothetical protein
Echinococcus multilocularis EmuJ_001148600   nuclear protein localization protein 4
Homo sapiens ENSG00000182446   nuclear protein localization 4 homolog (S. cerevisiae)
Loa Loa (eye worm) LOAG_01260   NPL4 family protein
Mus musculus ENSMUSG00000039703   nuclear protein localization 4 homolog (S. cerevisiae)
Neospora caninum NCLIV_035470   hypothetical protein, conserved
Oryza sativa 4325451   Os01g0377700
Onchocerca volvulus OVOC10940   Nuclear protein localization protein 4 homolog
Plasmodium berghei PBANKA_1107300   nuclear protein localization protein 4, putative
Plasmodium falciparum PF3D7_0507700   nuclear protein localization protein 4, putative
Plasmodium knowlesi PKNH_1025900   nuclear protein localization protein 4, putative
Plasmodium vivax PVX_097945   hypothetical protein, conserved
Plasmodium yoelii PY05126   Drosophila melanogaster GH03617p
Saccharomyces cerevisiae YBR170C   Npl4p
Schistosoma japonicum Sjp_0085950   Nuclear protein localization protein 4 homolog, putative
Schistosoma mansoni Smp_039180.2   nuclear protein localization
Schistosoma mansoni Smp_039180.1   nuclear protein localization
Schmidtea mediterranea mk4.000287.04   Nuclear protein localization protein 4 homolog
Schmidtea mediterranea mk4.003986.00   Nuclear protein localization protein 4 homolog
Schmidtea mediterranea mk4.033436.00   Nuclear protein localization protein 4 homolog
Schmidtea mediterranea mk4.001872.07   Nuclear protein localization protein 4 homolog
Schmidtea mediterranea mk4.020071.02   Nuclear protein localization protein 4 homolog
Schmidtea mediterranea mk4.006207.02   Nuclear protein localization protein 4 homolog
Toxoplasma gondii TGME49_271440   NPL4 family protein
Theileria parva TP02_0563   hypothetical protein, conserved
Trichomonas vaginalis TVAG_471060   conserved hypothetical protein

Essentiality

PF3D7_0507700 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F59E12.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_F59E12.4 Caenorhabditis elegans larval arrest wormbase
CELE_F59E12.4 Caenorhabditis elegans slow growth wormbase
CELE_F59E12.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_F59E12.5 Caenorhabditis elegans larval arrest wormbase
CELE_F59E12.5 Caenorhabditis elegans slow growth wormbase
PBANKA_1107300 Plasmodium berghei Essential plasmo
TGME49_271440 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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.
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

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 PF3D7_0507700 (Plasmodium falciparum), nuclear protein localization protein 4, putative
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