Detailed view for Bm1_46165

Basic information

TDR Targets ID: 239834
Brugia malayi, Chain A, Structure Of A Brca2-Dss1 Complex.
Source Database / ID:  GenBank

pI: 3.9165 | Length (AA): 80 | MW (Da): 9379 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG2

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

PF05160   DSS1/SEM1 family

Gene Ontology

Mouse over links to read term descriptions.
GO:0043248   proteasome assembly  
GO:0008541   proteasome regulatory particle, lid subcomplex  
GO:0006406   mRNA export from nucleus  

Metabolic Pathways

Proteasome (KEGG)
Homologous recombination (KEGG)

Structural information

Modbase 3D models:

There are 2 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
2 61 5chl (A) 12 71 10.00 0 0 0.8495 -0.17
14 74 1iyj (A) 6 63 64.00 0 0.39 0.9702 1.09

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_130158)

Species Accession Gene Product
Arabidopsis thaliana AT1G64750   probable 26S proteasome complex subunit sem1-1
Arabidopsis thaliana AT5G45010   probable 26S proteasome complex subunit sem1-2
Brugia malayi Bm1_46165   Chain A, Structure Of A Brca2-Dss1 Complex.
Caenorhabditis elegans CELE_Y119D3B.15   Protein DSS-1
Dictyostelium discoideum DDB_G0287633   DSS1/SEM1 family protein
Drosophila melanogaster Dmel_CG13779   Sem1 ortholog (S. cerevisiae)
Homo sapiens 7979   split hand/foot malformation (ectrodactyly) type 1
Loa Loa (eye worm) LOAG_06045   hypothetical protein
Mus musculus 20422   split hand/foot malformation (ectrodactyly) type 1
Oryza sativa 4325173   Os01g0273000
Oryza sativa 4327264   Os01g0316800
Saccharomyces cerevisiae YDR363W-A   proteasome regulatory particle lid subunit SEM1
Schistosoma japonicum Sjp_0060230   IPR007834,DSS1/SEM1,domain-containing
Schistosoma mansoni Smp_071000   hypothetical protein
Schmidtea mediterranea mk4.000128.00  

Essentiality

Bm1_46165 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_Y119D3B.15 Caenorhabditis elegans embryonic lethal wormbase
CELE_Y119D3B.15 Caenorhabditis elegans larval arrest wormbase
CELE_Y119D3B.15 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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

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
Species Known druggable target Linked compounds Reference
Homo sapiens split hand/foot malformation (ectrodactyly) type 1 Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0188 0.5709 0.5664
0.0411 0.5795 0.5786
0.0228 0.5786 0.5786
0.042 0.5871 0.5871
0.0184 0.5786 0.5786
0.0193 0.5712 0.5667
0.0224 0.256 0.256
0.0228 0.5786 0.5786
0.0205 0.3066 0.3066
0.0191 0.3017 0.3017
0.0397 0.5795 0.5786
0.0221 0.5779 0.5779
0.0185 0.3066 0.3066
0.0381 0.5795 0.5786
0.0228 0.5786 0.5786
0.0431 0.575 0.5732
0.0228 0.5786 0.5786
0.0228 0.5795 0.5786
0.0228 0.5795 0.5786
0.0424 0.5774 0.5764
0.0189 0.4798 0.4798
0.0311 0.3619 0.5249
0.0184 0.3061 0.3061
0.0224 0.2596 0.2591
0.021 0.5786 0.5786
0.0194 0.3066 0.3066
0.0228 0.3066 0.3066
0.0184 0.3061 0.3061

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

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier Bm1_46165 (Brugia malayi), Chain A, Structure Of A Brca2-Dss1 Complex.
Title for this comment
Comment