Detailed view for Bm1_11235

Basic information

TDR Targets ID: 240173
Brugia malayi, DNA polymerase alpha subunit B family protein
Source Database / ID:  GenBank

pI: 5.0348 | Length (AA): 581 | MW (Da): 65616 | 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

PF04042   DNA polymerase alpha/epsilon subunit B

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0003887   DNA-directed DNA polymerase activity  
GO:0003677   DNA binding  
GO:0006260   DNA replication  

Metabolic Pathways

Purine metabolism (KEGG)
Pyrimidine metabolism (KEGG)
Global map (KEGG)
DNA replication (KEGG)

Structural information

Modbase 3D models:

There are 5 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
11 90 4e2i (2) 1 78 31.00 0 0.75 0.567894 -0.95
21 120 4fvs (A) 68 161 33.00 0.038 0.22 0.286317 1.3
38 107 2v6z (M) 30 99 16.00 0.44 0.29 0.449382 -1.51
104 581 4y97 (A) 157 598 26.00 0 1 1.09862 -0.17
149 206 1ryj (A) 14 73 34.00 0.84 0.33 0.284028 0.81

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_128793)

Species Accession Gene Product
Arabidopsis thaliana AT1G67630   DNA polymerase alpha 2
Babesia bovis BBOV_III002160   conserved hypothetical protein
Brugia malayi Bm1_11235   DNA polymerase alpha subunit B family protein
Candida albicans CaO19.10314   B subunit of DNA polymerase alpha-primase complex
Candida albicans CaO19.2796   B subunit of DNA polymerase alpha-primase complex
Caenorhabditis elegans CELE_R01H10.1   Protein DIV-1
Cryptosporidium hominis Chro.80106   DNA polymerase alpha subunit
Cryptosporidium parvum cgd8_870   DNA dependent DNA polymerase alpha subunit, inactive calcineurin like phosphatase subunit
Dictyostelium discoideum DDB_G0282731   DNA polymerase alpha subunit B
Drosophila melanogaster Dmel_CG5923   DNA polymerase alpha 73kD
Echinococcus granulosus EgrG_000235700   dna polymerase alpha subunit b
Echinococcus multilocularis EmuJ_000235700   dna polymerase alpha subunit b
Homo sapiens 23649   polymerase (DNA directed), alpha 2, accessory subunit
Loa Loa (eye worm) LOAG_01850   DNA polymerase alpha subunit B family protein
Mus musculus ENSMUSG00000024833   polymerase (DNA directed), alpha 2
Neospora caninum NCLIV_037750   DNA polymerase alpha subunit, putative
Oryza sativa 4351872   Os12g0242900
Plasmodium berghei PBANKA_1326900   DNA polymerase alpha subunit B, putative
Plasmodium falciparum PF3D7_1463300   DNA polymerase alpha subunit B, putative
Plasmodium knowlesi PKNH_1218200   DNA polymerase alpha subunit B, putative
Plasmodium vivax PVX_117295   DNA polymerase alpha subunit, putative
Plasmodium yoelii PY04256   hypothetical protein
Saccharomyces cerevisiae YBL035C   DNA-directed DNA polymerase alpha subunit POL12
Schistosoma japonicum Sjp_0084180   ko:K02321 DNA polymerase alpha subunit B, putative
Schistosoma mansoni Smp_067260   transforming growth factor-beta receptor type I
Schmidtea mediterranea mk4.000859.08  
Toxoplasma gondii TGME49_268600   DNA polymerase epsilon subunit B protein
Theileria parva TP03_0575   hypothetical protein
Theileria parva TP03_0574   hypothetical protein

Essentiality

Bm1_11235 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_R01H10.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_R01H10.1 Caenorhabditis elegans larval arrest wormbase
YBL035C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1326900 Plasmodium berghei Essential plasmo
TGME49_268600 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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

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 Bm1_11235 (Brugia malayi), DNA polymerase alpha subunit B family protein
Title for this comment
Comment