Detailed view for Bm1_04865

Basic information

TDR Targets ID: 240356
Brugia malayi, DNA polymerase epsilon p17 subunit
Source Database / ID:  GenBank

pI: 5.8362 | Length (AA): 164 | MW (Da): 17765 | Paralog Number: 1

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

PF00808   Histone-like transcription factor (CBF/NF-Y) and archaeal histone

Gene Ontology

Mouse over links to read term descriptions.
GO:0046982   protein heterodimerization activity  
GO:0005622   intracellular  
GO:0043565   sequence-specific DNA binding  
GO:0003677   DNA binding  

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
8 139 1jfi (B) 109 239 22.00 0 0.99 1.12118 -0.04
12 71 1b67 (A) 4 61 34.00 0.86 0.41 0.640754 0.66
13 101 2byk (B) 11 99 37.00 0 0.96 0.991183 -0.05
73 160 5hmo (A) 802 890 15.00 0.083 0.02 0.726885 -0.55

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_129529)

Species Accession Gene Product
Arabidopsis thaliana AT2G27470   nuclear factor Y, subunit B11
Brugia malayi Bm1_07285   DNA polymerase epsilon p17 subunit
Brugia malayi Bm1_04865   DNA polymerase epsilon p17 subunit
Candida albicans CaO19.2088   protein subunit of DNA pol II
Candida albicans CaO19.9635   protein subunit of DNA pol II
Caenorhabditis elegans CELE_T26A5.8   Protein T26A5.8
Dictyostelium discoideum DDB_G0272222   DNA polymerase epsilon p17 subunit 3
Drosophila melanogaster Dmel_CG13399   Chromatin accessibility complex 14kD protein
Echinococcus granulosus EgrG_000095800   DNA polymerase epsilon subunit 3
Echinococcus multilocularis EmuJ_000095800   DNA polymerase epsilon subunit 3
Homo sapiens ENSG00000148229   polymerase (DNA directed), epsilon 3, accessory subunit
Loa Loa (eye worm) LOAG_09571   DNA polymerase epsilon p17 subunit
Mus musculus 59001   polymerase (DNA directed), epsilon 3 (p17 subunit)
Neospora caninum NCLIV_007410   DNA polymerase epsilon p17 subunit, putative
Oryza sativa 4347894   Os09g0568200
Onchocerca volvulus OVOC2554  
Saccharomyces cerevisiae YDR121W   Dpb4p
Schistosoma japonicum Sjp_0208450   ko:K02326 DNA polymerase epsilon subunit 3, putative
Schistosoma mansoni Smp_160150   TATA-binding protein-associated phosphoprotein
Toxoplasma gondii TGME49_252310   hypothetical protein

Essentiality

Bm1_04865 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_T26A5.8 Caenorhabditis elegans embryonic lethal wormbase
CELE_T26A5.8 Caenorhabditis elegans sterile wormbase
TGME49_252310 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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

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 Bm1_04865 (Brugia malayi), DNA polymerase epsilon p17 subunit
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