Detailed view for Bm1_00170

Basic information

TDR Targets ID: 242652
Brugia malayi, DNA-directed RNA polymerase II 7.6 kDa polypeptide, putative
Source Database / ID:  GenBank

pI: 7.6692 | Length (AA): 67 | MW (Da): 7769 | 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

PF01194   RNA polymerases N / 8 kDa subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0006351   transcription, DNA-dependent  
GO:0008270   zinc ion binding  
GO:0003899   DNA-directed RNA polymerase activity  
GO:0003677   DNA 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 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
1 64 3h0g (J) 1 64 73.00 0 1 1.62942 1.48
1 64 1twf (J) 1 65 66.00 0 1 1.64142 0.56

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_127691)

Species Accession Gene Product
Arabidopsis thaliana AT1G11475   DNA-directed RNA polymerases II, IV and V subunit 10
Arabidopsis thaliana AT1G61700   DNA-directed RNA polymerase subunit 10-like protein
Babesia bovis BBOV_III004290   RNA polymerases N / 8 kDa subunit family protein
Brugia malayi Bm1_00170   DNA-directed RNA polymerase II 7.6 kDa polypeptide, putative
Caenorhabditis elegans CELE_Y37E3.3   Protein RPB-10
Cryptosporidium parvum cgd4_3260   putative DNA-directed RNA polymerases I, II, and III 8.3 kda polypeptide
Dictyostelium discoideum DDB_G0272036   RNA polymerase I core subunit
Drosophila melanogaster Dmel_CG13628   CG13628 gene product from transcript CG13628-RA
Echinococcus granulosus EgrG_000213750   dna directed rna polymerases i ii and iii
Entamoeba histolytica EHI_122780   DNA-directed RNA polymerase subunit N, putative
Echinococcus multilocularis EmuJ_000213750  
Giardia lamblia GL50803_14413   DNA-directed RNA polymerase RPB10
Homo sapiens ENSG00000177700   polymerase (RNA) II (DNA directed) polypeptide L, 7.6kDa
Leishmania braziliensis LbrM.25.1280   DNA-directed RNA polymerase ii
Leishmania braziliensis LbrM.13.0920   DNA-directed RNA polymerase ii 8.2 Kd polypeptide, putative
Leishmania donovani LdBPK_131020.1   DNA-directed RNA polymerase ii 8.2 Kd polypeptide, putative
Leishmania donovani LdBPK_251350.1   DNA-directed RNA polymerase I subunit RPB10, putative
Leishmania infantum LinJ.25.1350   DNA-directed RNA polymerase ii
Leishmania infantum LinJ.13.1020   DNA-directed RNA polymerase ii 8.2 Kd polypeptide, putative
Leishmania major LmjF.25.1315   DNA-directed RNA polymerase ii
Leishmania major LmjF.13.1120   DNA-directed RNA polymerase ii 8.2 Kd polypeptide, putative
Leishmania mexicana LmxM.25.1315   DNA-directed RNA polymerase ii
Leishmania mexicana LmxM.13.1120   DNA-directed RNA polymerase ii 8.2 Kd polypeptide, putative
Loa Loa (eye worm) LOAG_00477   hypothetical protein
Mus musculus ENSMUSG00000038489   polymerase (RNA) II (DNA directed) polypeptide L
Neospora caninum NCLIV_062340   DNA-directed RNA polymerase subunit N (EC 2.7.7.6), related
Oryza sativa 4351671   Os12g0180400
Oryza sativa 4349985   Os11g0194800
Plasmodium berghei PBANKA_0805400   DNA-directed RNA polymerases I, II, and III subunit RPABC5, putative
Plasmodium falciparum PF3D7_0708100   DNA-directed RNA polymerases I, II, and III subunit RPABC5, putative
Plasmodium knowlesi PKNH_0106700   DNA-directed RNA polymerases I, II, and III subunit RPABC5, putative
Plasmodium vivax PVX_087935   DNA-directed RNA polymerase II 8.2 kDa polypeptide, putative
Plasmodium yoelii PY00134   Putative RNA polymerase II subunit Rpb10
Saccharomyces cerevisiae YOR210W   DNA-directed RNA polymerase core subunit RPB10
Schistosoma japonicum Sjp_0058640   ko:K03007 DNA-directed RNA Polymerase II subunit L, putative
Schistosoma mansoni Smp_008440   DNA-directed rna polymerase II subunit n
Schmidtea mediterranea mk4.007927.00  
Schmidtea mediterranea mk4.013094.01  
Schmidtea mediterranea mk4.017853.01  
Schmidtea mediterranea mk4.002525.07  
Schmidtea mediterranea mk4.009851.03  
Trypanosoma brucei gambiense Tbg972.3.1000   DNA-directed RNA polymerase subunit, putative
Trypanosoma brucei Tb927.11.3705   DNA-directed RNA polymerases I, II, and III subunit RPABC5, putative
Trypanosoma brucei Tb927.3.1250   DNA-directed RNA polymerase I subunit RPB10
Trypanosoma cruzi TcCLB.511881.14   DNA-directed RNA polymerase I subunit RPB10, putative
Trypanosoma cruzi TcCLB.509453.40   DNA-directed RNA polymerase I subunit RPB10, putative
Trypanosoma cruzi TcCLB.503821.10   DNA-directed RNA polymerase I subunit, putative
Trypanosoma cruzi TcCLB.509683.24   RNA-binding protein RBP10, putative
Toxoplasma gondii TGME49_217560   DNA-directed RNA polymerase II RPB10
Theileria parva TP02_0237   DNA-directed RNA polymerase subunit N, putative
Trichomonas vaginalis TVAG_434510   DNA-directed RNA polymerase II, subunit N, putative

Essentiality

Bm1_00170 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.1250 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.1250 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.3.1250 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.3.1250 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y37E3.3 Caenorhabditis elegans embryonic lethal wormbase
YOR210W Saccharomyces cerevisiae inviable yeastgenome
TGME49_217560 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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

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_00170 (Brugia malayi), DNA-directed RNA polymerase II 7.6 kDa polypeptide, putative
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