Detailed view for Bm1_27550

Basic information

TDR Targets ID: 243326
Brugia malayi, NMD3 family protein
Source Database / ID:  GenBank

pI: 6.8723 | Length (AA): 501 | MW (Da): 57726 | 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

PF04981   NMD3 family

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

Ribosome biogenesis in eukaryotes (KEGG)
RNA transport (KEGG)

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
69 240 5cwb (A) 23 195 9.00 0.51 0.02 0.402113 -0.28

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_127754)

Species Accession Gene Product
Arabidopsis thaliana AT2G03820   nonsense-mediated mRNA decay protein 3
Babesia bovis BBOV_IV009430   nonsense-mediated mRNA decay protein, putative
Brugia malayi Bm1_27550   NMD3 family protein
Candida albicans CaO19.8325   similar to S. cerevisiae NMD3 (YHR170W) involved in nuclear export of mature 60s ribosomal subunit, potential role in nonsense-m
Candida albicans CaO19.706   similar to S. cerevisiae NMD3 (YHR170W) involved in nuclear export of mature 60s ribosomal subunit, potential role in nonsense-m
Caenorhabditis elegans CELE_T25G3.3   Protein T25G3.3
Cryptosporidium hominis Chro.30166   Upf1p-interacting protein; Nmd3p
Cryptosporidium parvum cgd3_1340   NMD3p like protein involved in nonsense mediated decay
Dictyostelium discoideum DDB_G0271306   60S ribosomal export protein
Drosophila melanogaster Dmel_CG3460   Nonsense-mediated mRNA 3
Echinococcus granulosus EgrG_000518200   nonsense mediated mrna decay protein
Entamoeba histolytica EHI_083120   Nonsense-mediated mRNA decay protein 3, putative
Entamoeba histolytica EHI_104460   nonsense-mediated mRNA decay protein, putative
Echinococcus multilocularis EmuJ_000518200   nonsense mediated mrna decay protein
Giardia lamblia GL50803_24860   Nonsense-mediated mRNA decay protein 3
Homo sapiens ENSG00000169251   NMD3 ribosome export adaptor
Leishmania braziliensis LbrM.26.0980   hypothetical protein, conserved
Leishmania donovani LdBPK_260940.1   NMD3 family, putative
Leishmania infantum LinJ.26.0940   hypothetical protein, conserved
Leishmania major LmjF.26.0970   hypothetical protein, conserved
Leishmania mexicana LmxM.26.0970   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_02499   NMD3 family protein
Mus musculus 97112   NMD3 homolog (S. cerevisiae)
Neospora caninum NCLIV_059760   NMD3 protein, putative
Oryza sativa 4349477   Os10g0573900
Onchocerca volvulus OVOC411   60S ribosomal export protein NMD3 homolog
Plasmodium berghei PBANKA_0213400   60S ribosomal export protein NMD3, putative
Plasmodium falciparum PF3D7_0729300   60S ribosomal export protein NMD3, putative
Plasmodium knowlesi PKNH_0213900   60S ribosomal export protein NMD3, putative
Plasmodium vivax PVX_081765   60S ribosomal export protein NMD3, putative
Plasmodium yoelii PY01474   hypothetical protein
Saccharomyces cerevisiae YHR170W   ribosome-binding protein NMD3
Schistosoma japonicum Sjp_0112220   60S ribosomal export protein nmd3, putative
Schistosoma japonicum Sjp_0026850   ko:K07562 nonsense-mediated mRNA decay protein 3, putative
Schistosoma mansoni Smp_076630.2   nonsense-mediated mRNA decay protein
Schistosoma mansoni Smp_076630.1   nonsense-mediated mRNA decay protein
Schmidtea mediterranea mk4.004752.02   60S ribosomal export protein NMD3
Trypanosoma brucei gambiense Tbg972.7.920   hypothetical protein, conserved
Trypanosoma brucei Tb927.7.970   NMD3 family, putative
Trypanosoma congolense TcIL3000_7_650   NMD3 family, putative
Trypanosoma cruzi TcCLB.503843.10   NMD3 family, putative
Trypanosoma cruzi TcCLB.506729.90   NMD3 family, putative
Toxoplasma gondii TGME49_216480   NMD3 family protein
Theileria parva TP01_0828   hypothetical protein, conserved
Trichomonas vaginalis TVAG_342780   nonsense-mediated mRNA decay protein, putative
Trichomonas vaginalis TVAG_440380   nonsense-mediated mRNA decay protein, putative
Trichomonas vaginalis TVAG_283260   nonsense-mediated mRNA decay protein, putative

Essentiality

Bm1_27550 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.970 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.7.970 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.970 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.970 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_T25G3.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_T25G3.3 Caenorhabditis elegans larval arrest wormbase
CELE_T25G3.3 Caenorhabditis elegans slow growth wormbase
CELE_T25G3.3 Caenorhabditis elegans sterile wormbase
YHR170W Saccharomyces cerevisiae inviable yeastgenome
TGME49_216480 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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

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_27550 (Brugia malayi), NMD3 family protein
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