Detailed view for PF3D7_1222400

Basic information

TDR Targets ID: 5267
Plasmodium falciparum, AP2 domain transcription factor
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 7.303 | Length (AA): 2558 | MW (Da): 301911 | Paralog Number: 9

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

PF00847   AP2 domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0006355   regulation of transcription, DNA-dependent  
GO:0003700   transcription factor activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 15 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
398 490 3ult (A) 10 107 29.00 0.06 0.03 0.342657 -1.52
1036 1811 3s5m (A) 137 973 23.00 0.0013 0.85 0.278662 1.01
1431 1648 4tql (A) 10 234 8.00 0.5 0 0.0992228 -0.97
1718 2101 1z0h (A) 854 1285 29.00 0.15 0.14 -0.0565827 1.62
2290 2447 4ux7 (A) 78 232 20.00 0.61 0.04 0.236467 -0.24
2295 2421 4ux7 (A) 83 201 29.00 0.59 0.16 0.204948 0.52
171 431 3uau (A) 23 319 28.00 0.032 0.43 0.107856 0.78
384 481 3ult (A) 10 107 29.00 0.012 0.08 0.452683 -1.96
1326 1650 4wat (A) 153 506 15.00 0.088 0.07 0.203153 -0.21
1492 1813 4o87 (A) 2 316 26.00 0.0038 0.51 0.216872 0.31
1705 2088 1z0h (A) 854 1285 29.00 0.16 0.14 -0.0567189 1.62
1876 2227 2vkh (A) 35 458 28.00 0.78 0.4 0.0956827 1.03
2258 2434 4ux7 (A) 59 232 20.00 0.18 0.01 0.231885 -0.14
2278 2537 4u0r (A) 177 495 17.00 0.96 0.29 0.223562 -0.65
2282 2408 4ux7 (A) 83 201 29.00 0.63 0.16 0.2041 0.52

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 late trophozoite. PlasmoDB
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile gametocyte, early schizont, early trophozoite, late schizont. PlasmoDB
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, sporozoite, early ring, late ring, Oocyst, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Ring, Sporozoite. 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.
  • 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_129463)

Species Accession Gene Product
Arabidopsis thaliana AT5G62110   DNA-binding domain-containing protein
Babesia bovis BBOV_II006750   hypothetical protein
Babesia bovis BBOV_IV007830   serine/threonine protein kinase, putative
Babesia bovis BBOV_II003440   MIF4G domain containing protein
Brugia malayi Bm1_29405   hypothetical protein
Cryptosporidium hominis Chro.20247   hypothetical protein
Cryptosporidium hominis Chro.60196   MIF4G domain protein
Cryptosporidium parvum cgd2_2310   Ser/Thr protein kinase
Cryptosporidium parvum cgd6_1590   eukaryotic translation initiation factor 4 gamma; Nic domain containing protein
Loa Loa (eye worm) LOAG_08886   hypothetical protein
Neospora caninum NCLIV_031430   protein kinase, putative
Oryza sativa 9270578   Os01g0919300
Plasmodium berghei PBANKA_0902300   conserved Plasmodium protein, unknown function
Plasmodium berghei PBANKA_0110100   conserved Plasmodium protein, unknown function
Plasmodium berghei PBANKA_0939600   polyadenylate-binding protein-interacting protein 1, putative
Plasmodium berghei PBANKA_1415700   AP2 domain transcription factor, putative
Plasmodium berghei PBANKA_0826900   protein kinase, putative
Plasmodium berghei PBANKA_1437500   AP2 domain transcription factor AP2-G
Plasmodium berghei PBANKA_0912600   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_1107300   polyadenylate-binding protein-interacting protein 1, putative
Plasmodium falciparum PF3D7_1317200   AP2 domain transcription factor, putative
Plasmodium falciparum PF3D7_1136000   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_0926100   protein kinase, putative
Plasmodium falciparum PF3D7_0105700   asparagine-rich antigen Pfa35-2
Plasmodium falciparum PF3D7_0611800   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_1337500   conserved Plasmodium protein, unknown function
Plasmodium falciparum PF3D7_1222400   AP2 domain transcription factor
Plasmodium falciparum PF3D7_1222600   AP2 domain transcription factor AP2-G
Plasmodium falciparum PF3D7_1146800   conserved Plasmodium protein, unknown function
Plasmodium knowlesi PKNH_0904900   polyadenylate-binding protein-interacting protein 1, putative
Plasmodium knowlesi PKNH_0944600   conserved Plasmodium protein, unknown function
Plasmodium knowlesi PKNH_0934200   conserved Plasmodium protein, unknown function
Plasmodium knowlesi PKNH_1417900   AP2 domain transcription factor, putative
Plasmodium knowlesi PKNH_0724000   protein kinase, putative
Plasmodium knowlesi PKNH_1441700   AP2 domain transcription factor AP2-G, putative
Plasmodium vivax PVX_091040   polyadenylate-binding protein-interacting protein 1, putative
Plasmodium vivax PVX_099725   protein kinase, putative
Plasmodium vivax PVX_092415   hypothetical protein, conserved
Plasmodium vivax PVX_122680   transcription factor with AP2 domain(s), putative
Plasmodium vivax PVX_092935   hypothetical protein, conserved
Plasmodium vivax PVX_123760   transcription factor with AP2 domain(s), putative
Plasmodium yoelii PY01225   hypothetical protein
Plasmodium yoelii PY07205   hypothetical protein
Plasmodium yoelii PY03447   hypothetical protein
Plasmodium yoelii PY03626   ERYTHROCYTE MEMBRANE PROTEIN PFEMP3
Plasmodium yoelii PY00194   hypothetical protein
Plasmodium yoelii PY03053   hypothetical protein
Plasmodium yoelii PY07003   hypothetical protein
Plasmodium yoelii PY04926   hypothetical protein
Plasmodium yoelii PY00761   Protein kinase domain, putative
Plasmodium yoelii PY02775   hypothetical protein
Toxoplasma gondii TGME49_231070   protein kinase
Theileria parva TP04_0241   hypothetical protein
Theileria parva TP03_0296   hypothetical protein

Essentiality

PF3D7_1222400 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_0110100 Plasmodium berghei Slow plasmo
PBANKA_0826900 Plasmodium berghei Essential plasmo
PBANKA_0902300 Plasmodium berghei Dispensable plasmo
PBANKA_0912600 Plasmodium berghei Dispensable plasmo
PBANKA_0939600 Plasmodium berghei Essential plasmo
PBANKA_1437500 Plasmodium berghei Fast plasmo
TGME49_231070 Toxoplasma gondii Probably non-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
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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

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.

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Gene identifier PF3D7_1222400 (Plasmodium falciparum), AP2 domain transcription factor
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