Detailed view for Bm1_46695

Basic information

TDR Targets ID: 234904
Brugia malayi, RNA recognition motif.
Source Database / ID:  GenBank

pI: 6.1641 | Length (AA): 421 | MW (Da): 46120 | 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

PF00076   RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Gene Ontology

Mouse over links to read term descriptions.
GO:0003676   nucleic acid binding  
GO:0000166   nucleotide binding  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 5 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
65 359 3smz (A) 50 315 21.00 0 1 0.899813 -0.23
68 153 2cqi (A) 3 89 55.00 0 1 0.978376 -1.6
159 342 2mjn (A) 92 274 51.00 0 1 1.13605 -1.01
268 340 5lxy (B) 7 84 30.00 0 1 0.732497 -1.83
273 336 2dnp (A) 81 142 39.00 0.00000068 1 0.715019 -1.15

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_128789)

Species Accession Gene Product
Arabidopsis thaliana AT3G14100   RNA recognition motif-containing protein
Arabidopsis thaliana AT1G54080   oligouridylate-binding protein 1A
Arabidopsis thaliana AT1G17370   oligouridylate binding protein 1B
Brugia malayi Bm1_46695   RNA recognition motif.
Candida albicans CaO19.7368   similar to RNA binding protein implicated in nonsense-mediated RNA catabolism
Caenorhabditis elegans CELE_Y46G5A.13   Protein TIAR-2
Caenorhabditis elegans CELE_C18A3.5   Protein TIAR-1, isoform F
Drosophila melanogaster Dmel_CG5422   CG5422 gene product from transcript CG5422-RD
Entamoeba histolytica EHI_056660   RNA-binding protein TIA-1, putative
Homo sapiens 7073   TIA1 cytotoxic granule-associated RNA binding protein-like 1
Homo sapiens ENSG00000116001   TIA1 cytotoxic granule-associated RNA binding protein
Loa Loa (eye worm) LOAG_09365   hypothetical protein
Mus musculus ENSMUSG00000030846   Tia1 cytotoxic granule-associated RNA binding protein-like 1
Mus musculus ENSMUSG00000071337   cytotoxic granule-associated RNA binding protein 1
Oryza sativa 4350940   Os11g0620100
Oryza sativa 4346063   Os08g0520300
Oryza sativa 4343900   Os07g0615400
Onchocerca volvulus OVOC9845  
Saccharomyces cerevisiae YNL016W   Pub1p
Schistosoma japonicum Sjp_0300760   Nucleolysin TIA-1 isoform p40, putative
Schistosoma mansoni Smp_166190   nucleolysin tia-1
Schmidtea mediterranea mk4.006786.04  
Schmidtea mediterranea mk4.011673.00  
Schmidtea mediterranea mk4.010249.01  
Schmidtea mediterranea mk4.005343.02  
Schmidtea mediterranea mk4.005123.00  
Schmidtea mediterranea mk4.010510.01  
Schmidtea mediterranea mk4.004636.03  
Schmidtea mediterranea mk4.003054.06  
Schmidtea mediterranea mk4.006835.01  
Schmidtea mediterranea mk4.012155.00  
Schmidtea mediterranea mk4.011980.02  
Schmidtea mediterranea mk4.026876.00  
Schmidtea mediterranea mk4.018096.00  
Schmidtea mediterranea mk4.046746.00  
Schmidtea mediterranea mk4.030516.00  
Schmidtea mediterranea mk4.001097.09  
Schmidtea mediterranea mk4.001097.05  
Schmidtea mediterranea mk4.001097.02  
Schmidtea mediterranea mk4.020531.00  
Schmidtea mediterranea mk4.004636.00  
Schmidtea mediterranea mk4.027008.00  
Schmidtea mediterranea mk4.010249.00  
Trichomonas vaginalis TVAG_270500   arginine/serine-rich splicing factor, putative

Essentiality

Bm1_46695 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_C18A3.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_C18A3.5 Caenorhabditis elegans larval arrest wormbase
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.

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Gene identifier Bm1_46695 (Brugia malayi), RNA recognition motif.
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