Detailed view for PF3D7_1470000

Basic information

TDR Targets ID: 3107
Plasmodium falciparum, autophagy-related protein 12, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 9.6036 | Length (AA): 112 | MW (Da): 13334 | 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

PF04110   Ubiquitin-like autophagy protein Apg12

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0000045   autophagic vacuole formation  

Metabolic Pathways

Regulation of autophagy (KEGG)

Structural information

Modbase 3D models:

There are 3 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
1 112 3d32 (A) 3 117 22.00 0 0.93 1.2974 -0.53
28 112 4naw (A) 53 139 26.00 0.000011 1 1.20863 -1.19
28 108 3w1s (C) 102 181 32.00 0 1 1.03911 -0.85

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
NA% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, Ring. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs. Otto TD
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Oocyst, Female Gametocyte, Male Gametocyte. Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 0 hs, Sporozoite. Otto TD 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.

Orthologs

Ortholog group members (OG5_130185)

Species Accession Gene Product
Arabidopsis thaliana AT3G13970   ubiquitin-like protein ATG12B
Arabidopsis thaliana AT1G54210   ubiquitin-like protein ATG12A
Brugia malayi Bm1_52120   APG12 autophagy 12-like
Candida albicans CaO19.12500   similar to S. cerevisiae ATG12 (YBR217W) which nucleates preautophagosome formation as a conjugate with Atg5
Candida albicans CaO19.5033   similar to S. cerevisiae ATG12 (YBR217W) which nucleates preautophagosome formation as a conjugate with Atg5
Caenorhabditis elegans CELE_B0336.8   Protein LGG-3
Dictyostelium discoideum DDB_G0282929   autophagy protein 12
Drosophila melanogaster Dmel_CG10861   Autophagy-specific gene 12
Echinococcus granulosus EgrG_000259700   ubiquitin protein atg12
Echinococcus multilocularis EmuJ_000259700   ubiquitin protein atg12
Homo sapiens ENSG00000145782   autophagy related 12
Loa Loa (eye worm) LOAG_08635   hypothetical protein
Mus musculus ENSMUSG00000032905   autophagy related 12
Neospora caninum NCLIV_004600   hypothetical protein
Oryza sativa 4340429   Os06g0205000
Plasmodium berghei PBANKA_1333200   autophagy-related protein 12, putative
Plasmodium falciparum PF3D7_1470000   autophagy-related protein 12, putative
Plasmodium knowlesi PKNH_1211000   autophagy-related protein 12, putative
Plasmodium vivax PVX_116967   autophagy-related protein 12, putative
Saccharomyces cerevisiae YBR217W   Atg12p
Schistosoma mansoni Smp_093670   hypothetical protein
Schmidtea mediterranea mk4.002202.02   Ubiquitin-like protein ATG12
Toxoplasma gondii TGME49_321300   autophagy-related 12 variant 1, putative
Trichomonas vaginalis TVAG_144400   conserved hypothetical protein

Essentiality

PF3D7_1470000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
TGME49_321300 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.

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.

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Gene identifier PF3D7_1470000 (Plasmodium falciparum), autophagy-related protein 12, putative
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