Detailed view for Bm1_45410

Basic information

TDR Targets ID: 238745
Brugia malayi, Type III restriction enzyme, res subunit family protein
Source Database / ID:  GenBank

pI: 5.9627 | Length (AA): 1856 | MW (Da): 212585 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF00271   Helicase conserved C-terminal domain
PF00636   Ribonuclease III domain
PF02170   PAZ domain
PF03368   Dicer dimerisation domain
PF04851   Type III restriction enzyme, res subunit

Gene Ontology

Mouse over links to read term descriptions.
GO:0016891   endoribonuclease activity, producing 5'-phosphomonoesters  
GO:0005622   intracellular  
GO:0016787   hydrolase activity  
GO:0005524   ATP binding  
GO:0005515   protein binding  
GO:0004525   ribonuclease III activity  
GO:0004386   helicase activity  
GO:0003725   double-stranded RNA binding  
GO:0003723   RNA binding  
GO:0003677   DNA binding  
GO:0003676   nucleic acid binding  
GO:0006396   RNA processing  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 12 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
9 203 2gxq (A) 18 198 22.00 0 1 0.353465 -0.55
14 571 5jc3 (A) 300 886 29.00 0 1 0.435047 0.52
399 495 1hv8 (A) 242 333 29.00 0.00056 0.46 0.374663 -0.5
446 503 2z0m (A) 262 323 41.00 0.018 0.05 0.27165 1.01
633 928 4ngd (A) 756 1053 39.00 0 1 0.552183 -0.07
637 927 4nha (A) 760 1052 41.00 0 1 0.298189 0.82
1013 1138 4p1z (A) 487 612 7.00 0 0 0.0955879 -0.12
1521 1839 5b16 (A) 1039 1329 29.00 0.000000062 1 0.239275 0.99
1590 1844 3c4b (A) 1650 1898 66.00 0 1 0.838792 -0.55
1777 1850 2ljh (A) 60 133 24.00 0 0.95 0.277271 -0.69
1787 1843 3llh (A) 21 81 25.00 0.21 0.68 0.310411 -0.16
1816 1854 1uhz (A) 47 85 31.00 0.65 0.31 0.306713 0.11

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_128554)

Species Accession Gene Product
Arabidopsis thaliana AT3G43920   endoribonuclease Dicer-like 3
Arabidopsis thaliana AT3G03300   endoribonuclease Dicer-like 2
Arabidopsis thaliana AT1G01040   endoribonuclease Dicer-like 1
Arabidopsis thaliana AT5G20320   dicer-like protein 4
Brugia malayi Bm1_45410   Type III restriction enzyme, res subunit family protein
Caenorhabditis elegans CELE_K12H4.8   Protein DCR-1
Drosophila melanogaster Dmel_CG6493   Dicer-2
Drosophila melanogaster Dmel_CG4792   Dicer-1
Echinococcus granulosus EgrG_002007300   3'partial|endoribonuclease Dicer
Echinococcus granulosus EgrG_000085200   dicer 1
Echinococcus multilocularis EmuJ_000085200   dicer 1
Homo sapiens ENSG00000100697   dicer 1, ribonuclease type III
Loa Loa (eye worm) LOAG_02227   hypothetical protein
Mus musculus ENSMUSG00000041415   dicer 1, ribonuclease type III
Oryza sativa 4336362   Os04g0509300
Oryza sativa 4331440   Os03g0121800
Oryza sativa 4333337   Os03g0583900
Oryza sativa 4324864   Os01g0909200
Oryza sativa 4348944   Os10g0485600
Schistosoma japonicum Sjp_0069770   ko:K01165 Dicer-1 [EC:3.1.26.-], putative
Schistosoma japonicum Sjp_0313110   ko:K01165 Dicer1, Dcr-1 homolog [EC:3.1.26.-], putative
Schistosoma mansoni Smp_169750   dicer-1
Schmidtea mediterranea mk4.004816.00  
Schmidtea mediterranea mk4.001736.02  
Schmidtea mediterranea mk4.001736.03  
Schmidtea mediterranea mk4.001736.00   Endoribonuclease dcr-1
Schmidtea mediterranea mk4.001736.01   Endoribonuclease dcr-1

Essentiality

Bm1_45410 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_K12H4.8 Caenorhabditis elegans larval lethal wormbase
CELE_K12H4.8 Caenorhabditis elegans slow growth wormbase
CELE_K12H4.8 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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_45410 (Brugia malayi), Type III restriction enzyme, res subunit family protein
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