Detailed view for PF3D7_1205100

Basic information

TDR Targets ID: 5099
Plasmodium falciparum, O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.6853 | Length (AA): 578 | MW (Da): 66815 | 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

PF05889   O-phosphoseryl-tRNA(Sec) selenium transferase, SepSecS

Gene Ontology

Mouse over links to read term descriptions.
GO:0097056   GO:selenocysteinyl-tRNA(Sec) biosynthetic process  

GO:0016785   transferase activity, transferring selenium-containing groups  
GO:0016740   transferase activity  

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
45 512 1kkj (A) 3 405 12.00 0 1 0.66 0.21
109 435 1fg7 (A) 46 354 11.00 0 0.97 0.75 -0.61
17 378 2z67 (A) 9 367 33.00 0 1 1.0791 -0.87
28 460 3bc8 (A) 23 449 34.00 0 1 1.16593 -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 60-80% percentile early ring, early schizont, early trophozoite, late ring, late trophozoite, Oocyst, Ring. PlasmoDB Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 24 hs, intra-erythrocytic - 32 hs, gametocyte, sporozoite, late schizont, Sporozoite, Female Gametocyte, Male Gametocyte. Otto TD PlasmoDB Zanghi G Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 0 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs. Otto TD
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
  • 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_130020)

Species Accession Gene Product
Brugia malayi Bm1_27840   hypothetical protein
Caenorhabditis elegans CELE_D1054.13   Protein SECS-1, isoform A
Dictyostelium discoideum DDB_G0280197   O-phosphoseryl-tRNA selenium transferase
Drosophila melanogaster Dmel_CG1427   CG1427 gene product from transcript CG1427-RC
Echinococcus granulosus EgrG_000926100   o phosphoseryl tRNASec selenium
Echinococcus multilocularis EmuJ_000025100   O phospho L seryl tRNASec:L selenocysteinyl
Echinococcus multilocularis EmuJ_000926100   o phosphoseryl tRNA(Sec) selenium
Homo sapiens ENSG00000109618   Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase
Leishmania braziliensis LbrM.09.1000   hypothetical protein, conserved,SLA/LP autoantigen-like protein
Leishmania donovani LdBPK_091000.1   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Leishmania infantum LinJ.09.1000   hypothetical protein, conserved,SLA/LP autoantigen-like protein
Leishmania major LmjF.09.0950   hypothetical protein, conserved,SLA/LP autoantigen-like protein
Leishmania mexicana LmxM.09.0950   hypothetical protein, conserved,SLA/LP autoantigen-like protein
Loa Loa (eye worm) LOAG_02132   hypothetical protein
Mus musculus 211006   Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase
Neospora caninum NCLIV_057930   soluble liver antigen/liver pancreas antigen domain-containing protein, putative
Plasmodium berghei PBANKA_0603800   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Plasmodium falciparum PF3D7_1205100   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Plasmodium knowlesi PKNH_1304800   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Plasmodium vivax PVX_084285   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Plasmodium yoelii PY05385   Drosophila melanogaster CG1427 gene product-related
Schistosoma japonicum Sjp_0020410   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Schistosoma mansoni Smp_164050   hypothetical protein
Schmidtea mediterranea mk4.021264.00   O-phosphoseryl-tRNA(Sec) selenium transferase
Schmidtea mediterranea mk4.013115.03   O-phosphoseryl-tRNA(Sec) selenium transferase
Schmidtea mediterranea mk4.010643.00  
Trypanosoma brucei gambiense Tbg972.11.14540   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.13070   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Trypanosoma congolense TcIL3000_0_57180   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Trypanosoma cruzi TcCLB.507483.80   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Trypanosoma cruzi TcCLB.506389.60   O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Toxoplasma gondii TGME49_315170   O-phosphoseryl-tRNA(Sec) selenium transferase

Essentiality

PF3D7_1205100 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.4640 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.4640 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.4640 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.4640 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_0603800 Plasmodium berghei Dispensable plasmo
TGME49_315170 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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.
  • 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
  • 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.

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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier PF3D7_1205100 (Plasmodium falciparum), O-phosphoseryl-tRNA(Sec) selenium transferase, putative
Title for this comment
Comment