Detailed view for PF3D7_1118100

Basic information

TDR Targets ID: 1656
Plasmodium falciparum, AP-1 complex subunit sigma, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.999 | Length (AA): 155 | MW (Da): 18234 | 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

PF01217   Clathrin adaptor complex small chain

Gene Ontology

Mouse over links to read term descriptions.
GO:0003674   molecular_function  
GO:0030131   clathrin adaptor complex  
GO:0030117   membrane coat  
GO:0005515   protein binding  
GO:0008565   protein transporter activity  
GO:0006810   transport  
GO:0016192   vesicle-mediated transport  
GO:0015031   protein transport  
GO:0006886   intracellular protein transport  

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
1 141 1gw5 (S) 1 141 48.00 0 1 1.74 -2.56
1 149 1w63 (Q) 1 149 56.00 0 1 1.79 -1.85
1 147 4p6z (S) 1 147 56.00 0 1 1.75339 -1.54
1 145 4hmy (S) 1 145 60.00 0 1 1.70428 -0.81
1 142 2vgl (S) 1 142 47.00 0 1 1.61393 -1.4

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 - 24 hs, intra-erythrocytic - 32 hs, gametocyte, early schizont, late ring, Oocyst, Ring, Female Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, sporozoite, early ring, early trophozoite, late schizont, late trophozoite, Male Gametocyte. Otto TD PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Sporozoite. Zanghi G
Show/Hide expression data references
  • PlasmoDB Data on upregulation of P. falciparum genes in different life cycle stages, combined from several microarray experiments available in PlasmoDB
  • 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_127391)

Species Accession Gene Product
Arabidopsis thaliana AT4G35410   AP-1 complex subunit sigma-2
Arabidopsis thaliana AT2G17380   AP-1 complex subunit sigma-1
Babesia bovis BBOV_IV010890   clathrin assembly protein small subunit, putative
Brugia malayi Bm1_23720   adapter-related protein complex 1 sigma 1B subunit, putative
Candida albicans CaO19.1012   similar to S. cerevisiae APS1 (YLR170C) small subunit of the clathrin-associated protein AP-1 complex
Candida albicans CaO19.8626   similar to S. cerevisiae APS1 (YLR170C) small subunit of the clathrin-associated protein AP-1 complex
Caenorhabditis elegans CELE_F29G9.3   Protein APS-1
Cryptosporidium hominis Chro.80465   clathrin assembly protein AP19
Cryptosporidium parvum cgd8_4040   Aps1p/AP17 like clathrin adaptor protein
Dictyostelium discoideum DDB_G0295711   sigma adaptin
Drosophila melanogaster Dmel_CG5864   Adaptor Protein complex 1, sigma subunit
Echinococcus granulosus EgrG_000126800   clathrin coat assembly protein ap19
Echinococcus granulosus EgrG_000107900   AP 1 complex subunit sigma 2
Entamoeba histolytica EHI_178740   clathrin adaptor complex small chain, putative
Echinococcus multilocularis EmuJ_000107900   AP 1 complex subunit sigma 2
Echinococcus multilocularis EmuJ_000126800   clathrin coat assembly protein ap19
Homo sapiens 130340   adaptor-related protein complex 1, sigma 3 subunit
Homo sapiens ENSG00000182287   adaptor-related protein complex 1, sigma 2 subunit
Homo sapiens ENSG00000106367   adaptor-related protein complex 1, sigma 1 subunit
Leishmania braziliensis LbrM.29.1530   clathrin coat assembly protein ap19, putative,sigma adaptin, putative
Leishmania donovani LdBPK_291530.1   clathrin coat assembly protein ap19, putative
Leishmania infantum LinJ.29.1530   clathrin coat assembly protein ap19, putative,sigma adaptin, putative
Leishmania major LmjF.29.1440   clathrin coat assembly protein ap19, putative,sigma adaptin, putative
Leishmania mexicana LmxM.08_29.1440   clathrin coat assembly protein ap19, putative,sigma adaptin, putative
Loa Loa (eye worm) LOAG_05125   hypothetical protein
Mus musculus ENSMUSG00000031367   adaptor-related protein complex 1, sigma 2 subunit
Mus musculus ENSMUSG00000004849   adaptor protein complex AP-1, sigma 1
Mus musculus ENSMUSG00000054702   adaptor-related protein complex AP-1, sigma 3
Neospora caninum NCLIV_036290   hypothetical protein
Oryza sativa 4334331   Os03g0783700
Oryza sativa 4334539   Os03g0811300
Plasmodium berghei PBANKA_0930000   AP-1 complex subunit sigma, putative
Plasmodium falciparum PF3D7_1118100   AP-1 complex subunit sigma, putative
Plasmodium knowlesi PKNH_0915800   AP-1 complex subunit sigma, putative
Plasmodium vivax PVX_091540   AP-1 complex subunit sigma, putative
Plasmodium yoelii PY05216   clathrin assembly protein AP19, small subunit
Saccharomyces cerevisiae YLR170C   Aps1p
Schistosoma japonicum Sjp_0306670   AP-1 complex subunit sigma-2, putative
Schistosoma japonicum Sjp_0051710   AP-1 complex subunit sigma-2, putative
Schistosoma mansoni Smp_019990   clathrin adapter complex protein
Schistosoma mansoni Smp_060700   clathrin coat assembly protein ap19
Schmidtea mediterranea mk4.000974.01  
Schmidtea mediterranea mk4.000562.01  
Trypanosoma brucei gambiense Tbg972.3.4390   clathrin coat assembly protein ap19, putative
Trypanosoma brucei Tb927.3.4000   clathrin coat assembly protein ap19, putative
Trypanosoma congolense TcIL3000_0_51410   clathrin coat assembly protein ap19, putative
Trypanosoma congolense TcIL3000_3_2650   clathrin coat assembly protein ap19, putative
Trypanosoma cruzi TcCLB.510003.41   clathrin coat assembly protein ap19, putative
Trypanosoma cruzi TcCLB.509623.19   clathrin coat assembly protein ap19, putative
Toxoplasma gondii TGME49_270370   clathrin assembly protein AP19, putative
Theileria parva TP01_0754   clathrin assembly protein, putative
Trichomonas vaginalis TVAG_442910   clathrin coat assembly protein, putative
Trichomonas vaginalis TVAG_379690   clathrin coat assembly protein, putative
Trichomonas vaginalis TVAG_056870   clathrin coat assembly protein ap19, putative
Trichomonas vaginalis TVAG_101310   clathrin coat assembly protein ap17, putative

Essentiality

PF3D7_1118100 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.4000 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.4000 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.4000 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.3.4000 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F29G9.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_F29G9.3 Caenorhabditis elegans larval arrest wormbase
CELE_F29G9.3 Caenorhabditis elegans larval lethal wormbase
CELE_F29G9.3 Caenorhabditis elegans sterile wormbase
PBANKA_0930000 Plasmodium berghei Essential plasmo
TGME49_270370 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • 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

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
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus AP-2 complex subunit sigma 142 aa 47.5% 141 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.

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Gene identifier PF3D7_1118100 (Plasmodium falciparum), AP-1 complex subunit sigma, putative
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