Detailed view for PF3D7_1475000

Basic information

TDR Targets ID: 3048
Plasmodium falciparum, mediator of RNA polymerase II transcription subunit 31, putative
Source Database / ID:  PlasmoDB   |   GeneDB   |   MPMP

pI: 8.5453 | Length (AA): 132 | MW (Da): 16606 | 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

PF05669   SOH1

Gene Ontology

Mouse over links to read term descriptions.
GO:0016592   Srb-mediator complex  
GO:0006355   regulation of transcription, DNA-dependent  
GO:0000119   mediator complex  
GO:0016455   RNA polymerase II transcription mediator activity  
GO:0045449   regulation of transcription  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
36 119 3fbi (B) 24 108 40.00 0 1 1.19656 -0.79

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
NA% percentile intra-erythrocytic - 0 hs, Ring. Otto TD Zanghi G
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intra-erythrocytic - 24 hs, Female Gametocyte. Otto TD Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intra-erythrocytic - 8 hs, intra-erythrocytic - 16 hs, intra-erythrocytic - 32 hs, intra-erythrocytic - 40 hs, intra-erythrocytic - 48 hs, early trophozoite, Male Gametocyte. Otto TD PlasmoDB Lasonder E
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Oocyst, 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.
  • Lasonder E Integrated transcriptomic and proteomic analyses of P. falciparum gametocytes. Molecular insight into sex-specific processes and translational repression.
  • Otto TD New insights into the blood-stage transcriptome of Plasmodium falciparum using RNA-Seq.

Orthologs

Ortholog group members (OG5_128731)

Species Accession Gene Product
Arabidopsis thaliana AT5G19910   mediator of RNA polymerase II transcription subunit 31
Babesia bovis BBOV_III002400   SOH1 family protein
Brugia malayi Bm1_32655   SOH1 family protein
Candida albicans CaO19.1429   interacts with Rad5 DNA repair protein
Candida albicans CaO19.9005   interacts with Rad5 DNA repair protein
Caenorhabditis elegans CELE_F32H2.2   Protein MDT-31, isoform A
Cryptosporidium hominis Chro.30376   similar to CGI-125 protein
Cryptosporidium parvum cgd3_3300   SOH1 family protein
Dictyostelium discoideum DDB_G0285221   hypothetical protein
Drosophila melanogaster Dmel_CG1057   Mediator complex subunit 31
Echinococcus granulosus EgrG_000235500   Mediator of RNA polymerase II transcription
Entamoeba histolytica EHI_030160   SOH1 protein, putative
Echinococcus multilocularis EmuJ_000235500   Mediator of RNA polymerase II transcription
Giardia lamblia GL50803_20633   SOH1 protein, putative
Homo sapiens ENSG00000108590   mediator complex subunit 31
Loa Loa (eye worm) LOAG_00110   mediator complex subunit 31
Mus musculus ENSMUSG00000020801   mediator complex subunit 31
Neospora caninum NCLIV_046860   hypothetical protein
Oryza sativa 4349407   Os10g0564100
Oryza sativa 4342476   Os07g0164600
Onchocerca volvulus OVOC3039  
Plasmodium berghei PBANKA_1301200   mediator of RNA polymerase II transcription subunit 31, putative
Plasmodium falciparum PF3D7_1475000   mediator of RNA polymerase II transcription subunit 31, putative
Plasmodium knowlesi PKNH_1245300   mediator of RNA polymerase II transcription subunit 31, putative
Plasmodium vivax PVX_118630   hypothetical protein, conserved
Plasmodium yoelii PY00705   hypothetical protein
Saccharomyces cerevisiae YGL127C   Soh1p
Schistosoma japonicum Sjp_0089880   Mediator of RNA polymerase II transcription subunit 31, putative
Schistosoma mansoni Smp_024060.2   hypothetical protein
Schistosoma mansoni Smp_024060.1   hypothetical protein
Schmidtea mediterranea mk4.014726.00  
Schmidtea mediterranea mk4.004851.00  
Toxoplasma gondii TGME49_225970   mediator complex subunit MED31
Trichomonas vaginalis TVAG_342960   soh1 protein, putative

Essentiality

PF3D7_1475000 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_F32H2.2 Caenorhabditis elegans embryonic lethal wormbase
TGME49_225970 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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_1475000 (Plasmodium falciparum), mediator of RNA polymerase II transcription subunit 31, putative
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