Detailed view for Bm1_28835

Basic information

TDR Targets ID: 236167
Brugia malayi, Transcription initiation factor IIA, gamma subunit, helical domain containing protein
Source Database / ID:  GenBank

pI: 4.2675 | Length (AA): 495 | MW (Da): 54957 | 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

PF02268   Transcription initiation factor IIA, gamma subunit, helical domain
PF02751   Transcription initiation factor IIA, gamma subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0005672   transcription factor TFIIA complex  
GO:0005515   protein binding  
GO:0003702   RNA polymerase II transcription factor activity  
GO:0006367   transcription initiation from RNA polymerase II promoter  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
47 393 4lg9 (A) 152 483 24.00 0.0049 1 0.66361 1
228 378 4lg8 (A) 279 422 22.00 0.034 1 0.593651 -0.36
387 486 1nvp (D) 3 99 63.00 0 1 0.91162 -0.17

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_128511)

Species Accession Gene Product
Arabidopsis thaliana AT1G71840   WD-40 repeat-containing protein
Brugia malayi Bm1_28835   Transcription initiation factor IIA, gamma subunit, helical domain containing protein
Candida albicans CaO19.4029   seven potential WD domains
Candida albicans CaO19.11512   seven potential WD domains
Caenorhabditis elegans CELE_Y111B2A.12   Protein Y111B2A.12, isoform B
Cryptosporidium hominis Chro.60416   WD-40 repeat protein
Cryptosporidium parvum cgd6_3610   hypothetical predicted WD-40 repeat protein, unknown function
Dictyostelium discoideum DDB_G0269344   WD40 repeat-containing protein
Drosophila melanogaster Dmel_CG5114   CG5114 gene product from transcript CG5114-RB
Entamoeba histolytica EHI_023080   WD domain containing protein
Giardia lamblia GL50803_7533   Angio-associated migratory cell protein
Homo sapiens ENSG00000127837   angio-associated, migratory cell protein
Leishmania braziliensis LbrM.33.0060   hypothetical protein, conserved
Leishmania donovani LdBPK_330060.1   WD domain, G-beta repeat, putative
Leishmania infantum LinJ.33.0060   hypothetical protein, conserved
Leishmania major LmjF.33.0060   hypothetical protein, conserved
Leishmania mexicana LmxM.32.0060   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_03809   hypothetical protein
Mus musculus ENSMUSG00000006299   angio-associated migratory protein
Oryza sativa 4333750   Os03g0685600
Onchocerca volvulus OVOC13492  
Saccharomyces cerevisiae YIR012W   Sqt1p
Schmidtea mediterranea mk4.001917.04  
Trypanosoma brucei gambiense Tbg972.5.5640   hypothetical protein, conserved
Trypanosoma brucei Tb927.5.4100   WD domain, G-beta repeat, putative
Trypanosoma congolense TcIL3000_5_4640   WD domain, G-beta repeat, putative
Trypanosoma cruzi TcCLB.507941.60   WD domain, G-beta repeat, putative
Trypanosoma cruzi TcCLB.509985.20   WD domain, G-beta repeat, putative
Trichomonas vaginalis TVAG_380320   Angio-associated migratory cell protein, putative

Essentiality

Bm1_28835 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.4100 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.5.4100 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.5.4100 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.5.4100 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_Y111B2A.12 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y111B2A.12 Caenorhabditis elegans larval arrest wormbase
CELE_Y111B2A.12 Caenorhabditis elegans slow growth wormbase
YIR012W Saccharomyces cerevisiae inviable yeastgenome
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
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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_28835 (Brugia malayi), Transcription initiation factor IIA, gamma subunit, helical domain containing protein
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