Detailed view for PF3D7_1469000

Basic information

TDR Targets ID: 2988
Plasmodium falciparum, translation initiation factor IF-1
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 10.674 | Length (AA): 182 | MW (Da): 21898 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 1

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

PF01176   Translation initiation factor 1A / IF-1

Gene Ontology

Mouse over links to read term descriptions.
GO:0020011   apicoplast  
GO:0003723   RNA binding  
GO:0003743   translation initiation factor activity  
GO:0006413   translational initiation  

Metabolic Pathways

RNA transport (KEGG)

Structural information

Modbase 3D models:

There are 8 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
100 171 1hr0 (W) 1 70 41.00 0 1 0.93 -0.55
101 172 1ah9 () 1 70 40.00 0 1 0.82 -0.16
81 182 1d7q (A) 20 120 24.00 0 1 0.72914 0.77
94 182 2oqk (A) 22 107 30.00 0 0.98 0.785711 -0.25
97 181 4mno (A) 13 97 33.00 0 1 0.869533 -0.25
100 171 1hr0 (W) 1 70 41.00 0 1 0.888704 -0.13
100 173 2n3s (A) 1 72 36.00 0 0.97 0.764293 0.28
104 173 4ql5 (A) 5 72 35.00 0 1 0.863715 -0.59

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 - 40 hs, intra-erythrocytic - 48 hs. Otto TD
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 32 hs, early schizont, early trophozoite, late trophozoite, Sporozoite. Otto TD PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, late schizont, Oocyst, Ring, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Show/Hide expression data references
  • 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
  • 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_130791)

Species Accession Gene Product
Arabidopsis thaliana AT4G11175   putative translation initiation factor IF-1
Chlamydia trachomatis CT_323   translation initiation factor IF-1
Escherichia coli b0884   translation initiation factor IF-1
Mycobacterium leprae ML1962c   PROBABLE TRANSLATION INITIATION FACTOR IF-1 INFA
Mycobacterium tuberculosis Rv3462c   Probable translation initiation factor if-1 InfA
Mycobacterium ulcerans MUL_0843   translation initiation factor IF-1
Oryza sativa 3131394   translation initiation factor 1
Plasmodium berghei PBANKA_1332200   translation initiation factor IF-1, putative
Plasmodium falciparum PF3D7_1469000   translation initiation factor IF-1
Plasmodium knowlesi PKNH_1212200   translation initiation factor IF-1, putative
Plasmodium vivax PVX_117015   translation initiation factor IF-1, putative
Treponema pallidum TP0097   translation initiation factor IF-1
Theileria parva TP01_0597   hypothetical protein
Wolbachia endosymbiont of Brugia malayi Wbm0191   translation initiation factor 1, IF-1

Essentiality

PF3D7_1469000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu3523 Mycobacterium tuberculosis essential nmpdr
b0884 Escherichia coli essential goodall
PBANKA_1332200 Plasmodium berghei Essential plasmo
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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.

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_1469000 (Plasmodium falciparum), translation initiation factor IF-1
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