Detailed view for Bm1_03090

Basic information

TDR Targets ID: 244879
Brugia malayi, RNA binding motif protein
Source Database / ID:  GenBank

pI: 10.8257 | Length (AA): 492 | MW (Da): 55579 | Paralog Number: 1

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

Ribosome biogenesis in eukaryotes (KEGG)

Structural information

Modbase 3D models:

There are 4 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
1 127 2voo (B) 52 172 17.00 0 0.52 0.39053 0.17
63 127 2jrs (A) 28 89 37.00 0.27 1 0.711114 -1.58
66 123 2cq0 (A) 243 297 49.00 0.00093 1 0.721886 -0.73
136 353 2mjn (A) 101 259 32.00 0.017 1 0.334089 1.5

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_128178)

Species Accession Gene Product
Arabidopsis thaliana AT2G21440   RNA recognition motif-containing protein
Arabidopsis thaliana AT5G05720   RNA recognition motif-containing protein
Babesia bovis BBOV_IV000270   RNA binding protein, putative
Brugia malayi Bm1_03090   RNA binding motif protein
Brugia malayi Bm1_55305   RNA-binding protein
Candida albicans CaO19.5198   rRNA processing
Candida albicans CaO19.12665   rRNA processing
Caenorhabditis elegans CELE_R05H10.2   Protein RBM-28
Cryptosporidium hominis Chro.50265   2810480G15Rik protein
Cryptosporidium parvum cgd5_1190   nucleolar protein NOP4; rrm domain containing protein
Dictyostelium discoideum DDB_G0270156   hypothetical protein
Drosophila melanogaster Dmel_CG4806   CG4806 gene product from transcript CG4806-RA
Echinococcus granulosus EgrG_001107900   RNA binding protein 28
Entamoeba histolytica EHI_092500   RNA recognition motif domain containing protein
Echinococcus multilocularis EmuJ_001107900   RNA binding protein 28
Giardia lamblia GL50803_92031   RNA binding protein, putative
Homo sapiens ENSG00000106344   RNA binding motif protein 28
Leishmania braziliensis LbrM.32.3050   RNA-binding protein, putative
Leishmania donovani LdBPK_322950.1   RNA-binding protein, putative
Leishmania infantum LinJ.32.2950   RNA-binding protein, putative
Leishmania major LmjF.32.2810   RNA-binding protein, putative
Leishmania mexicana LmxM.31.2810   RNA-binding protein, putative
Loa Loa (eye worm) LOAG_01611   hypothetical protein
Mus musculus ENSMUSG00000029701   RNA binding motif protein 28
Oryza sativa 4334625   Os03g0824300
Oryza sativa 4334461   Os03g0801800
Plasmodium berghei PBANKA_1036300   RNA-binding protein, putative
Plasmodium falciparum PF3D7_1405900   RNA-binding protein, putative
Plasmodium knowlesi PKNH_1352200   RNA-binding protein, putative
Plasmodium vivax PVX_086140   RNA-binding protein, putative
Plasmodium yoelii PY05280   RNA recognition motif, putative
Saccharomyces cerevisiae YPL043W   Nop4p
Schistosoma japonicum Sjp_0001340   RNA-binding protein 28, putative
Schistosoma mansoni Smp_133470   ribonucleoprotein-related
Trypanosoma brucei gambiense Tbg972.11.17950   RNA-binding protein, putative,DRBD10
Trypanosoma brucei Tb927.11.16020   RNA-binding protein, putative
Trypanosoma congolense TcIL3000.11.15930   RNA-binding protein, putative
Trypanosoma cruzi TcCLB.507037.20   RNA-binding protein, putative
Trypanosoma cruzi TcCLB.508707.80   RNA-binding protein, putative
Theileria parva TP02_0933   hypothetical protein
Trichomonas vaginalis TVAG_593040   conserved hypothetical protein
Trichomonas vaginalis TVAG_115400   ribonucleoprotein, chloroplast, putative

Essentiality

Bm1_03090 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.7680 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb11.01.7680 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.7680 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.7680 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_R05H10.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_R05H10.2 Caenorhabditis elegans larval arrest wormbase
CELE_R05H10.2 Caenorhabditis elegans slow growth wormbase
YPL043W Saccharomyces cerevisiae inviable yeastgenome
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

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_03090 (Brugia malayi), RNA binding motif protein
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