Detailed view for Bm1_26760

Basic information

TDR Targets ID: 243961
Brugia malayi, Calcium binding EGF domain containing protein
Source Database / ID:  GenBank

pI: 4.9141 | Length (AA): 888 | MW (Da): 99771 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF00057   Low-density lipoprotein receptor domain class A
PF00058   Low-density lipoprotein receptor repeat class B
PF07645   Calcium-binding EGF domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016020   membrane  
GO:0005515   protein binding  
GO:0005509   calcium ion binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 10 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
3 72 2fyj (A) 3 82 30.00 0.0063 0.11 0.127129 0.86
36 70 3a7q (B) 47 81 51.00 0.41 0.78 0.731714 -1.41
40 126 4zrp (C) 58 167 54.00 0 0.67 0.384973 0.43
86 459 4xbm (B) 90 439 30.00 0.0000082 0.81 0.168171 2.37
128 804 1n7d (A) 44 682 40.00 0 1 0.961387 1.94
173 214 1j8e (A) 2 43 50.00 0.0000000079 0.97 0.748297 -1.11
175 221 2m0p (A) 1108 1147 58.00 0.00000013 0.91 0.585928 -0.39
272 308 2i1p (A) 1190 1226 49.00 0.000046 0.29 0.595667 -0.42
572 888 4a0p (A) 706 1002 28.00 0 1 0.571282 0.49
578 883 4dg6 (A) 83 373 34.00 0 0.98 0.587895 0.98

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_130540)

Species Accession Gene Product
Brugia malayi Bm1_26760   Calcium binding EGF domain containing protein
Caenorhabditis elegans CELE_T13C2.6   Protein T13C2.6, isoform B
Drosophila melanogaster Dmel_CG31094   Lipophorin receptor 1
Drosophila melanogaster Dmel_CG31092   Lipophorin receptor 2
Homo sapiens 7804   low density lipoprotein receptor-related protein 8, apolipoprotein e receptor
Homo sapiens ENSG00000147852   very low density lipoprotein receptor
Homo sapiens ENSG00000130164   low density lipoprotein receptor
Loa Loa (eye worm) LOAG_09396   calcium binding EGF domain-containing protein
Loa Loa (eye worm) LOAG_12886   hypothetical protein
Mus musculus ENSMUSG00000024924   very low density lipoprotein receptor
Mus musculus ENSMUSG00000032193   low density lipoprotein receptor
Mus musculus 16975   low density lipoprotein receptor-related protein 8, apolipoprotein e receptor
Onchocerca volvulus OVOC10071  
Schmidtea mediterranea mk4.003192.00  
Schmidtea mediterranea mk4.015914.00  
Schmidtea mediterranea mk4.017479.00  
Schmidtea mediterranea mk4.029221.03  

Essentiality

Bm1_26760 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_T13C2.6 Caenorhabditis elegans embryonic lethal wormbase
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
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.

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 low density lipoprotein receptor 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
0.0005 1 1
0.0006 0.5 0.5
0.0221 0.2849 0.2839
0.0064 0.5563 0.5563
0.0167 0.4189 0.4189
0.0005 1 1
0.0234 0.2772 0.2778
0.0054 0.7749 0.7733
0.0006 0.5 0.5
0.0343 0.3854 0.3833
0.0006 0.5 0.5
0.0012 0.5 0.5
0.0006 0.5 0.5
0.0006 1 1
0.0006 0.5 0.5
0.0006 0.5 0.5
0.0006 0.5 0.5
0.0339 0.8773 0.8773
0.0167 0.4189 0.4189
0.0054 0.7749 0.7733
0.0006 0.5 0.5
0.0012 0.5 0.5
0.0006 1 1
0.0006 0.5 0.5
0.0005 0.5 0.5
0.0012 0.5 0.5
0.0269 0.2901 0.6078
0.0006 0.5 0.5
0.0054 0.7749 0.7733
0.0025 0.277 0.277
0.0142 0.2575 0.3625
0.0064 0.2802 0.2802
0.0114 0.5665 0.5665
0.0006 0.5 0.5
0.0339 0.4656 1
0.0234 0.2772 0.2778
0.0236 0.264 0.257
0.0089 0.4346 0.4346
0.0163 0.3454 0.3631
0.0103 0.9438 0.9438
0.0336 0.395 0.395
0.0113 0.7427 1
0.0168 0.3019 0.3012
0.0063 0.5623 0.508
0.0006 1 1
0.0012 0.5 0.5

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.

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User comments

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Gene identifier Bm1_26760 (Brugia malayi), Calcium binding EGF domain containing protein
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