Detailed view for PF3D7_0930200

Basic information

TDR Targets ID: 4974
Plasmodium falciparum, leucine-rich repeat protein
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 5.6601 | Length (AA): 639 | MW (Da): 76374 | 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

PF14580   Leucine-rich repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0020011   apicoplast  
GO:0005515   protein binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 9 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
30 601 1ziw (A) 31 643 15.00 0 1 0.4 0.5
99 236 1a9n (A) 22 162 28.00 0.0000000072 0.98 0.53 -1.06
13 542 1ziw (A) 36 645 22.00 0.0000094 1 0.795421 1.34
79 199 4r5c (A) 185 304 44.00 0.0000017 1 0.713258 -0.45
97 220 4xos (A) 18 146 34.00 0.016 1 0.671953 -0.89
367 548 4uos (A) 1 184 21.00 0.23 0.8 0.60982 -1.25
5 558 3b2d (A) 30 598 17.00 0.029 1 0.84698 1.43
82 276 1xeu (A) 83 256 37.00 0.00000021 1 0.550864 0.43
367 548 4uos (A) 1 184 21.00 0.19 0.7 0.61582 -1.38

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 Male Gametocyte. Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, early schizont, late schizont, late trophozoite, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, early trophozoite. Otto TD PlasmoDB
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, gametocyte, Oocyst, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Ring. Zanghi G
Show/Hide expression data references
  • 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.
  • 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

Orthologs

Ortholog group members (OG5_130416)

Species Accession Gene Product
Brugia malayi Bm1_11170   Leucine Rich Repeat family protein
Caenorhabditis elegans CELE_K10D2.8   Protein K10D2.8
Drosophila melanogaster Dmel_CG13125   CG13125 gene product from transcript CG13125-RA
Drosophila melanogaster Dmel_CG40440   CG40440 gene product from transcript CG40440-RA
Echinococcus granulosus EgrG_000433500   leucine rich repeat containing protein 48
Echinococcus granulosus EgrG_000459400   leucine rich repeat containing protein 48
Echinococcus multilocularis EmuJ_000433500   leucine rich repeat containing protein 48
Echinococcus multilocularis EmuJ_000459400   leucine rich repeat containing protein 48
Giardia lamblia GL50803_17567   Protein phosphatases PP1 regulatory subunit SDS22
Homo sapiens ENSG00000171962   leucine rich repeat containing 48
Leishmania braziliensis LbrM.30.3670   hypothetical protein, conserved
Leishmania donovani LdBPK_303700.1   Component of motile flagella protein 46
Leishmania infantum LinJ.30.3700   hypothetical protein, conserved
Leishmania major LmjF.30.3640   hypothetical protein, conserved
Leishmania mexicana LmxM.29.3640   hypothetical protein, conserved
Mus musculus ENSMUSG00000056598   leucine rich repeat containing 48
Neospora caninum NCLIV_011540   Leucine-rich protein, related
Plasmodium berghei PBANKA_0830900   leucine-rich repeat protein
Plasmodium falciparum PF3D7_0930200   leucine-rich repeat protein
Plasmodium knowlesi PKNH_0728700   leucine-rich repeat protein
Plasmodium yoelii PY06687   Leucine Rich Repeat, putative
Schistosoma japonicum Sjp_0077930   Leucine-rich repeat-containing protein 48, putative
Schistosoma mansoni Smp_076540   hypothetical protein
Schmidtea mediterranea mk4.012914.00  
Schmidtea mediterranea mk4.000266.18  
Schmidtea mediterranea mk4.000266.17  
Schmidtea mediterranea mk4.024403.00  
Schmidtea mediterranea mk4.000266.19  
Trypanosoma brucei gambiense Tbg972.6.4830   hypothetical protein, conserved
Trypanosoma brucei Tb927.6.5030   Component of motile flagella protein 46
Trypanosoma congolense TcIL3000_6_4460   Component of motile flagella protein 46
Trypanosoma cruzi TcCLB.506945.280   Dynein regulatory complex subunit 3
Toxoplasma gondii TGME49_211430   leucine rich repeat-containing protein
Trichomonas vaginalis TVAG_275810   protein phosphatases pp1 regulatory subunit, putative

Essentiality

PF3D7_0930200 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.5030 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.6.5030 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.6.5030 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.6.5030 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_211430 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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.
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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): 0.1

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.

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User comments

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Gene identifier PF3D7_0930200 (Plasmodium falciparum), leucine-rich repeat protein
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