Detailed view for Bm1_07900

Basic information

TDR Targets ID: 238267
Brugia malayi, hypothetical protein
Source Database / ID:  GenBank

pI: 8.0181 | Length (AA): 109 | MW (Da): 12349 | 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)

Gene Ontology

Mouse over links to read term descriptions.
GO:0006351   transcription, DNA-dependent  
GO:0030528   transcription regulator activity  
GO:0008270   zinc ion binding  
GO:0003676   nucleic acid binding  
GO:0006379   mRNA cleavage  
GO:0045449   regulation of transcription  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
5 108 4c2m (I) 9 124 37.00 0.000000000074 0.99 1.21143 0.7
23 73 4czw (A) 643 703 39.00 0.72 0.39 0.53219 0.93
55 106 1qyp (A) 3 54 31.00 0.00000031 0.73 0.803364 0.42

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_128752)

Species Accession Gene Product
Arabidopsis thaliana AT3G25940   TFIIB zinc-binding protein
Arabidopsis thaliana AT1G20065   hypothetical protein
Brugia malayi Bm1_07900   hypothetical protein
Candida albicans CaO19.2287   RNA polymerase I subunit A12.2
Candida albicans CaO19.9827   RNA polymerase I subunit A12.2
Caenorhabditis elegans CELE_C15H11.8   Protein RPOA-12
Dictyostelium discoideum DDB_G0278263   RNA polymerase I subunit
Drosophila melanogaster Dmel_CG13418   CG13418 gene product from transcript CG13418-RA
Echinococcus granulosus EgrG_000973700   DNA directed RNA polymerase I subunit RPA12
Entamoeba histolytica EHI_137900   DNA-directed RNA polymerase I subunit 13, putative
Entamoeba histolytica EHI_044620   DNA-directed RNA polymerase I subunit 13, putative
Echinococcus multilocularis EmuJ_000973700   DNA directed RNA polymerase I subunit RPA12
Giardia lamblia GL50803_8518   DNA-directed RNA polymerase I 13.1 kDa polypeptide
Homo sapiens ENSG00000066379   zinc ribbon domain containing 1
Loa Loa (eye worm) LOAG_10428   hypothetical protein
Mus musculus ENSMUSG00000036315   zinc ribbon domain containing, 1
Oryza sativa 4333888   Os03g0711700
Saccharomyces cerevisiae YJR063W   DNA-directed RNA polymerase I core subunit RPA12
Schistosoma japonicum Sjp_0084700   ko:K03000 DNA-directed RNA polymerase I subunit A12, putative
Schistosoma mansoni Smp_078220   DNA-directed RNA polymerase I
Schistosoma mansoni Smp_072800   DNA-directed RNA polymerase I
Trichomonas vaginalis TVAG_118100   DNA-directed RNA polymerase III, putative

Essentiality

Bm1_07900 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_C15H11.8 Caenorhabditis elegans embryonic lethal wormbase
CELE_C15H11.8 Caenorhabditis elegans larval arrest wormbase
CELE_C15H11.8 Caenorhabditis elegans slow growth wormbase
CELE_C15H11.8 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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_07900 (Brugia malayi), hypothetical protein
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