Detailed view for Bm1_00400

Basic information

TDR Targets ID: 241166
Brugia malayi, U5 snRNP-associated 102 kDa protein
Source Database / ID:  GenBank

pI: 7.6522 | Length (AA): 970 | MW (Da): 110632 | 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

PF06424   PRP1 splicing factor, N-terminal
PF14559   Tetratricopeptide repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0000398   nuclear mRNA splicing, via spliceosome  
GO:0005634   nucleus  
GO:0005622   intracellular  
GO:0005515   protein binding  
GO:0005488   binding  
GO:0006396   RNA processing  

Metabolic Pathways

Spliceosome (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
405 966 4hnx (A) 24 685 16.00 0 1 0.675981 0.71
625 714 5ic8 (C) 95 185 33.00 0.0036 1 0.517883 -0.81
683 834 3asf (B) 58 210 14.00 0 0.53 0.415701 -1.11
736 841 5fzs (A) 1 106 21.00 0 0.96 0.574878 -1.98

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_128613)

Species Accession Gene Product
Arabidopsis thaliana AT4G03430   pre-mRNA-processing factor 6-like protein STA1
Babesia bovis BBOV_IV009720   u5 snRNP-associated subunit, putaitve
Brugia malayi Bm1_00400   U5 snRNP-associated 102 kDa protein
Candida albicans CaO19.6356   RNA splicing factor, U5 snRNP component
Candida albicans CaO19.13713   RNA splicing factor, U5 snRNP component
Caenorhabditis elegans CELE_Y59A8B.6   Protein PRP-6
Cryptosporidium hominis Chro.50295   pre-mRNA splicing factor
Cryptosporidium parvum cgd5_920   Pre-mRNA splicing factor Pro1/Prp6. HAT repeat protein
Dictyostelium discoideum DDB_G0272374   PRP1 splicing factor domain-containing protein
Drosophila melanogaster Dmel_CG6841   CG6841 gene product from transcript CG6841-RA
Echinococcus granulosus EgrG_000620200   pre mRNA processing factor 6
Entamoeba histolytica EHI_093960   pre-mRNA splicing factor, putative
Echinococcus multilocularis EmuJ_000620200   pre mRNA processing factor 6
Homo sapiens ENSG00000101161   pre-mRNA processing factor 6
Loa Loa (eye worm) LOAG_09015   U5 snRNP-associated protein
Mus musculus ENSMUSG00000002455   PRP6 pre-mRNA splicing factor 6 homolog (yeast)
Neospora caninum NCLIV_020440   U5 snRNP-associated 102 kDa protein, putative
Oryza sativa 4349020   Os10g0498600
Oryza sativa 9270118   Os01g0263600
Plasmodium berghei PBANKA_0937400   pre-mRNA-processing factor 6, putative
Plasmodium falciparum PF3D7_1110200   pre-mRNA-processing factor 6, putative
Plasmodium knowlesi PKNH_0907900   pre-mRNA-processing factor 6, putative
Plasmodium vivax PVX_091160   pre-mRNA-processing factor 6, putative
Plasmodium yoelii PY03704   putative pre-mRNA splicing factor
Saccharomyces cerevisiae YBR055C   Prp6p
Schistosoma japonicum Sjp_0083530   Pre-mRNA-processing factor 6, putative
Schistosoma japonicum Sjp_0120100   Pre-mRNA-processing factor 6, putative
Schistosoma japonicum Sjp_0032640   Pre-mRNA-processing factor 6, putative
Schistosoma mansoni Smp_078420   pre-mRNA splicing factor
Schistosoma mansoni Smp_078410   pre-mRNA splicing factor
Schistosoma mansoni Smp_164470   pre-mRNA splicing factor
Schmidtea mediterranea mk4.000313.03   Pre-mRNA-processing factor 6
Toxoplasma gondii TGME49_205220   U5 snRNP-associated subunit, putative
Theileria parva TP01_0797   hypothetical protein, conserved
Trichomonas vaginalis TVAG_005680   conserved hypothetical protein

Essentiality

Bm1_00400 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_Y59A8B.6 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y59A8B.6 Caenorhabditis elegans larval arrest wormbase
CELE_Y59A8B.6 Caenorhabditis elegans slow growth wormbase
CELE_Y59A8B.6 Caenorhabditis elegans sterile wormbase
YBR055C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_0937400 Plasmodium berghei Essential plasmo
TGME49_205220 Toxoplasma gondii Probably essential sidik
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
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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_00400 (Brugia malayi), U5 snRNP-associated 102 kDa protein
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