Detailed view for Bm1_53520

Basic information

TDR Targets ID: 233727
Brugia malayi, DNA-directed RNA polymerases III 12.5 kDa polypeptide, putative
Source Database / ID:  GenBank

pI: 6.6611 | Length (AA): 108 | MW (Da): 12425 | 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

PF01096   Transcription factor S-II (TFIIS)
PF02150   RNA polymerases M/15 Kd subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0042779   tRNA 3'-trailer cleavage  
GO:0006351   transcription, DNA-dependent  
GO:0030528   transcription regulator activity  
GO:0008270   zinc ion binding  
GO:0003899   DNA-directed RNA polymerase activity  
GO:0003677   DNA binding  
GO:0003676   nucleic acid binding  
GO:0045449   regulation of transcription  
GO:0006350   transcription  

Metabolic Pathways

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

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
1 108 1twf (I) 3 112 26.00 0 0.9 1.2121 0.63
21 54 1rim (A) 1 29 48.00 0.73 0.52 0.571415 0.97
54 107 1qyp (A) 3 54 38.00 0.000000097 0.91 0.9295 -0.03
62 107 1tfi (A) 5 48 45.00 0 0.98 0.906026 0.05

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_127419)

Species Accession Gene Product
Arabidopsis thaliana AT4G07950   DNA-directed RNA polymerase, subunit M
Arabidopsis thaliana AT1G01210   DNA-directed RNA polymerase, subunit M
Babesia bovis BBOV_II000510   transcription factor S-II protein, putative
Brugia malayi Bm1_53520   DNA-directed RNA polymerases III 12.5 kDa polypeptide, putative
Candida albicans CaO19.5360   DNA-directed RNA polymerase III
Candida albicans CaO19.12820   DNA-directed RNA polymerase III
Caenorhabditis elegans CELE_Y77E11A.6   Protein RPC-11
Cryptosporidium parvum cgd7_510   RNA polymerase III subunit C11
Dictyostelium discoideum DDB_G0287707   RNA polymerase III subunit
Drosophila melanogaster Dmel_CG33785   CG33785 gene product from transcript CG33785-RA
Echinococcus granulosus EgrG_001094900   RNA polymerase III
Entamoeba histolytica EHI_053450   RNA polymerase III subunit, putative
Echinococcus multilocularis EmuJ_001094900   RNA polymerase III
Giardia lamblia GL50803_137619   RNA polymerase III subunit C11
Homo sapiens 51728   polymerase (RNA) III (DNA directed) polypeptide K, 12.3 kDa
Leishmania braziliensis LbrM.19.0740   RNA polymerase III C11 subunit, putative
Leishmania donovani LdBPK_190420.1   DNA-directed RNA polymerase III subunit C11, putative
Leishmania infantum LinJ.19.0420   RNA polymerase III C11 subunit, putative
Leishmania major LmjF.19.0420   RNA polymerase III C11 subunit, putative
Leishmania mexicana LmxM.19.0420   RNA polymerase III C11 subunit, putative
Loa Loa (eye worm) LOAG_09878   DNA-directed RNA polymerase III polypeptide
Mus musculus ENSMUSG00000038628   polymerase (RNA) III (DNA directed) polypeptide K
Neospora caninum NCLIV_055830   hypothetical protein
Oryza sativa 4330285   Os02g0672700
Onchocerca volvulus OVOC2365  
Plasmodium berghei PBANKA_0304200   DNA-directed RNA polymerase III subunit RPC10, putative
Plasmodium falciparum PF3D7_0206600   DNA-directed RNA polymerase III subunit RPC10, putative
Plasmodium knowlesi PKNH_0414400   DNA-directed RNA polymerase III subunit RPC10, putative
Plasmodium vivax PVX_003760   transcription factor, putative
Plasmodium yoelii PY00068   Zn-ribbon transcription factor-related
Saccharomyces cerevisiae YDR045C   DNA-directed RNA polymerase III core subunit RPC11
Schistosoma japonicum Sjp_0061000   ko:K03019 DNA-directed RNA polymerase III subunit C11, putative
Schistosoma mansoni Smp_034100   DNA-directed RNA polymerase
Schmidtea mediterranea mk4.001125.10   DNA-directed RNA polymerase subunit
Trypanosoma brucei gambiense Tbg972.10.18440   RNA polymerase III C11 subunit, putative,DNA- directed RNA polymerase III, putative
Trypanosoma brucei Tb927.10.15150   DNA-directed RNA polymerase III subunit C11, putative
Trypanosoma cruzi TcCLB.510029.40   DNA-directed RNA polymerase III subunit C11, putative
Trypanosoma cruzi TcCLB.511291.120   DNA-directed RNA polymerase III subunit C11, putative
Toxoplasma gondii TGME49_312250   DNA-directed RNA polymerase III RPC11
Theileria parva TP04_0529   hypothetical protein
Trichomonas vaginalis TVAG_482170   DNA-directed RNA polymerase I, putative

Essentiality

Bm1_53520 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.15150 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.15150 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.15150 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.10.15150 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
YDR045C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0304200 Plasmodium berghei Slow plasmo
TGME49_312250 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

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_53520 (Brugia malayi), DNA-directed RNA polymerases III 12.5 kDa polypeptide, putative
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