Detailed view for Bm1_55240

Basic information

TDR Targets ID: 238881
Brugia malayi, Probable DNA-directed RNA polymerases I/III 16 kDa polypeptide
Source Database / ID:  GenBank

pI: 4.7423 | Length (AA): 113 | MW (Da): 12953 | 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

PF13656   RNA polymerase Rpb3/Rpb11 dimerisation domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0006351   transcription, DNA-dependent  
GO:0003899   DNA-directed RNA polymerase activity  
GO:0003677   DNA binding  
GO:0046983   protein dimerization activity  
GO:0006350   transcription  

Metabolic Pathways

Purine metabolism (KEGG)
Pyrimidine metabolism (KEGG)
Global map (KEGG)
RNA polymerase (KEGG)

Structural information

Modbase 3D models:

There are 2 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
6 105 4c2m (K) 42 140 35.00 0 0.96 1.38626 -0.75
14 103 2pa8 (L) 1 90 26.00 0 0.68 1.19416 -0.88

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_128425)

Species Accession Gene Product
Arabidopsis thaliana AT2G29540   DNA-directed RNA polymerase RPAC14
Babesia bovis BBOV_II001150   RNA polymerase small subunit protein, putative
Brugia malayi Bm1_55240   Probable DNA-directed RNA polymerases I/III 16 kDa polypeptide
Candida albicans CaO19.7805   similar to S. cerevisiae RPC19 (YNL113W) subunit common to RNA polymerases I and III
Candida albicans CaO19.172   similar to S. cerevisiae RPC19 (YNL113W) subunit common to RNA polymerases I and III
Caenorhabditis elegans CELE_F58A4.9   Protein RPAC-19
Dictyostelium discoideum DDB_G0291362   hypothetical protein
Drosophila melanogaster Dmel_CG10685   lethal (2) 37Cg
Giardia lamblia GL50803_10840   DNA-directed RNA polymerases I and III 16 kDa polypeptide
Leishmania braziliensis LbrM.28.2250   DNA-directed RNA polymerase-like protein
Leishmania donovani LdBPK_282200.1   DNA-directed RNA polymerase-like protein
Leishmania infantum LinJ.28.2200   DNA-directed RNA polymerase-like protein
Leishmania major LmjF.28.2060   DNA-directed RNA polymerase-like protein
Leishmania mexicana LmxM.28.2060   DNA-directed RNA polymerase-like protein
Loa Loa (eye worm) LOAG_02401   hypothetical protein
Mus musculus ENSMUSG00000029642   polymerase (RNA) I polypeptide D
Neospora caninum NCLIV_025940   DNA-directed RNA polymerase I 16 kDa polypeptide, related
Oryza sativa 4351715   Os12g0194700
Plasmodium berghei PBANKA_1027500   DNA-directed RNA polymerases I and III subunit RPAC2, putative
Plasmodium falciparum PF3D7_1415200   DNA-directed RNA polymerases I and III subunit RPAC2, putative
Plasmodium knowlesi PKNH_1342900   DNA-directed RNA polymerases I and III subunit RPAC2, putative
Plasmodium vivax PVX_085690   RNA polymerase small subunit, putative
Plasmodium yoelii PY04455   RNA polymerases L / 13 to 16 kDa subunit
Saccharomyces cerevisiae YNL113W   DNA-directed RNA polymerase core subunit RPC19
Trypanosoma brucei gambiense Tbg972.11.9940   DNA-dependent RNA polymerases, putative
Trypanosoma brucei Tb927.11.8890   DNA-dependent RNA polymerases, putative
Trypanosoma cruzi TcCLB.511801.44   DNA-dependent RNA polymerases, putative
Trypanosoma cruzi TcCLB.508601.30   DNA-directed RNA polymerase I/III subunit, putative
Toxoplasma gondii TGME49_261540   DNA-directed RNA polymerase I RPAC2
Theileria parva TP04_0471   RNA polymerase small subunit, putative
Trichomonas vaginalis TVAG_190340   DNA-directed RNA polymerases I and III, putative

Essentiality

Bm1_55240 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.0625 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.0625 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.0625 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.01.0625 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F58A4.9 Caenorhabditis elegans slow growth wormbase
YNL113W Saccharomyces cerevisiae inviable yeastgenome
TGME49_261540 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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.
  • 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
  • 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.

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

1 literature reference was collected for this gene.

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_55240 (Brugia malayi), Probable DNA-directed RNA polymerases I/III 16 kDa polypeptide
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