Detailed view for PF3D7_1117600

Basic information

TDR Targets ID: 1651
Plasmodium falciparum, peptidyl-tRNA hydrolase ICT1, peptidyl-tRNA hydrolase ICT1, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 10.2335 | Length (AA): 153 | MW (Da): 18141 | 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

PF00472   RF-1 domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0003747   translation release factor activity  
GO:0006415   translational termination  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
1 129 2rtx (A) 1 119 25.00 0 0.68 1.01034 0.29
14 106 1j26 (A) 17 109 35.00 0.000000000017 1 1.15944 -1.1
1 122 2rtx (A) 1 117 25.00 0 0.5 1.17456 0.01
10 107 1j26 (A) 13 110 35.00 0 1 1.26195 -0.78

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 - 32 hs. Otto TD
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile intra-erythrocytic - 24 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, Oocyst. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, Sporozoite, Female Gametocyte. Otto TD Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 0 hs, Ring, Male Gametocyte. Otto TD Zanghi G Lasonder E
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_128349)

Species Accession Gene Product
Arabidopsis thaliana AT1G62850   Class I peptide chain release factor
Brugia malayi Bm1_53040   Hypothetical 23.2 kDa protein in SKM1-TRF4 intergenic region
Candida albicans CaO19.8055   similar to S. cerevisiae YOL114C
Candida albicans CaO19.425   similar to S. cerevisiae YOL114C
Caenorhabditis elegans CELE_R02F2.9   Protein R02F2.9
Dictyostelium discoideum DDB_G0272142   hypothetical protein
Drosophila melanogaster Dmel_CG6094   CG6094 gene product from transcript CG6094-RB
Escherichia coli b0191   alternative stalled-ribosome rescue factor B
Echinococcus granulosus EgrG_001118500   Class I peptide chain release factor
Echinococcus multilocularis EmuJ_001118500   Class I peptide chain release factor
Homo sapiens ENSG00000167862   immature colon carcinoma transcript 1
Leishmania braziliensis LbrM.30.1180   hypothetical protein, conserved
Leishmania donovani LdBPK_301120.1   RF-1 domain containing protein, putative
Leishmania infantum LinJ.30.1120   hypothetical protein, conserved
Leishmania major LmjF.30.1060   hypothetical protein, conserved
Leishmania mexicana LmxM.29.1060   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_06021   hypothetical protein
Mus musculus ENSMUSG00000018858   immature colon carcinoma transcript 1
Oryza sativa 4332255   Os03g0249200
Plasmodium berghei PBANKA_0930400   peptidyl-tRNA hydrolase ICT1, putative
Plasmodium falciparum PF3D7_1117600   peptidyl-tRNA hydrolase ICT1, peptidyl-tRNA hydrolase ICT1, putative
Plasmodium knowlesi PKNH_0915300   peptidyl-tRNA hydrolase ICT1, putative
Plasmodium vivax PVX_091510   Immature colon carcinoma transcript 1, putative
Saccharomyces cerevisiae YOL114C   hypothetical protein
Schistosoma japonicum Sjp_0213280   Immature colon carcinoma transcript 1 protein precursor, putative
Schistosoma mansoni Smp_086710   hypothetical protein
Schmidtea mediterranea mk4.000718.03   Peptidyl-tRNA hydrolase ICT1, mitochondrial
Trypanosoma brucei gambiense Tbg972.6.2260   hypothetical protein, conserved
Trypanosoma brucei Tb927.6.2500   RF-1 domain containing protein, putative
Trypanosoma congolense TcIL3000_6_2000   RF-1 domain containing protein, putative
Trypanosoma cruzi TcCLB.509965.210   RF-1 domain containing protein, putative
Trypanosoma cruzi TcCLB.509053.150   RF-1 domain containing protein, putative

Essentiality

PF3D7_1117600 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.6.2500 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.6.2500 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.6.2500 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.6.2500 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0191 Escherichia coli non-essential goodall
PBANKA_0930400 Plasmodium berghei Dispensable plasmo
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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

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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User comments

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Gene identifier PF3D7_1117600 (Plasmodium falciparum), peptidyl-tRNA hydrolase ICT1, peptidyl-tRNA hydrolase ICT1, putative
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