Detailed view for Bm1_17950

Basic information

TDR Targets ID: 242933
Brugia malayi, RNA polymerase Rpb3/Rpb11 dimerisation domain containing protein
Source Database / ID:  GenBank

pI: 6.4991 | Length (AA): 339 | MW (Da): 38124 | 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

PF01000   RNA polymerase Rpb3/RpoA insert domain
PF01193   RNA polymerase Rpb3/Rpb11 dimerisation domain

Gene Ontology

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

Metabolic Pathways

Purine metabolism (KEGG)
Pyrimidine metabolism (KEGG)
Global map (KEGG)
RNA polymerase (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
44 330 4c2m (C) 31 331 43.00 0 1 1.17541 0.44

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_127819)

Species Accession Gene Product
Arabidopsis thaliana AT1G60620   RNA polymerase I subunit 43
Arabidopsis thaliana AT1G60850   DNA-directed RNA polymerase subunit AAC42
Babesia bovis BBOV_III011540   DNA-directed RNA polymerase, alpha subunit, N terminal domain containing protein
Brugia malayi Bm1_17950   RNA polymerase Rpb3/Rpb11 dimerisation domain containing protein
Candida albicans CaO19.11048   RNA polymerase III (C) subunit
Candida albicans CaO19.3564   RNA polymerase III (C) subunit
Caenorhabditis elegans CELE_H43I07.2   Protein RPAC-40
Cryptosporidium hominis Chro.80042   DNA-directed RNA polymerase I
Cryptosporidium parvum cgd8_300   RNA polymerase III C5 subunit
Dictyostelium discoideum DDB_G0282339   RNA polymerase I subunit
Drosophila melanogaster Dmel_CG3756   CG3756 gene product from transcript CG3756-RA
Echinococcus granulosus EgrG_000860800   DNA directed RNA polymerases I and III subunit
Echinococcus multilocularis EmuJ_000860800   DNA directed RNA polymerases I and III subunit
Giardia lamblia GL50803_10055   DNA-directed RNA polymerase subunit D
Homo sapiens ENSG00000171453   polymerase (RNA) I polypeptide C, 30kDa
Leishmania braziliensis LbrM.19.0980   DNA-directed RNA polymerase, alpha subunit, putative
Leishmania donovani LdBPK_190660.1   DNA-directed RNA polymerases I and III subunit RPAC1, putative
Leishmania infantum LinJ.19.0660   DNA-directed RNA polymerase, alpha subunit, putative
Leishmania major LmjF.19.0660   DNA-directed RNA polymerase, alpha subunit, putative
Leishmania mexicana LmxM.19.0660   DNA-directed RNA polymerase, alpha subunit, putative
Loa Loa (eye worm) LOAG_00653   hypothetical protein
Mus musculus ENSMUSG00000067148   polymerase (RNA) I polypeptide C
Neospora caninum NCLIV_038790   RNA polymerase II, related
Oryza sativa 4332531   Os03g0295400
Onchocerca volvulus OVOC6421  
Plasmodium berghei PBANKA_0905700   DNA-directed RNA polymerases I and III subunit RPAC1, putative
Plasmodium falciparum PF3D7_1143300   DNA-directed RNA polymerases I and III subunit RPAC1, putative
Plasmodium knowlesi PKNH_0941200   DNA-directed RNA polymerases I and III subunit RPAC1, putative
Plasmodium vivax PVX_092770   DNA-directed RNA polymerase I, putative
Plasmodium yoelii PY01971   DNA-directed RNA polymerases i and iii 40 kDa polypeptide
Saccharomyces cerevisiae YPR110C   DNA-directed RNA polymerase core subunit RPC40
Schistosoma japonicum Sjp_0014050   ko:K03027 DNA-directed RNA Polymerase III subunit C5, putative
Schistosoma mansoni Smp_004640   DNA-directed RNA polymerase I
Schmidtea mediterranea mk4.005099.00  
Schmidtea mediterranea mk4.001464.02  
Schmidtea mediterranea mk4.000073.18  
Trypanosoma brucei gambiense Tbg972.10.18770   DNA-directed RNA polymerase, alpha subunit, putative
Trypanosoma brucei Tb927.10.15370   DNA-directed RNA polymerases I and III subunit RPAC1, putative
Trypanosoma congolense TcIL3000_10_13150   DNA-directed RNA polymerases I and III subunit RPAC1, putative
Trypanosoma cruzi TcCLB.511293.30   DNA-directed RNA polymerases I and III subunit RPAC1, putative
Trypanosoma cruzi TcCLB.506503.110   DNA-directed RNA polymerases I and III subunit RPAC1, putative
Toxoplasma gondii TGME49_267390   DNA-directed RNA polymerase I RPAC1
Theileria parva TP02_0766   DNA-directed RNA polymerase I, putative
Trichomonas vaginalis TVAG_016650   DNA-directed RNA polymerase I/III subunits, putative

Essentiality

Bm1_17950 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.15370 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.10.15370 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.15370 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.15370 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_H43I07.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_H43I07.2 Caenorhabditis elegans larval arrest wormbase
CELE_H43I07.2 Caenorhabditis elegans larval lethal wormbase
CELE_H43I07.2 Caenorhabditis elegans slow growth wormbase
YPR110C Saccharomyces cerevisiae inviable yeastgenome
TGME49_267390 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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

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.

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Gene identifier Bm1_17950 (Brugia malayi), RNA polymerase Rpb3/Rpb11 dimerisation domain containing protein
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