Detailed view for EmuJ_000159800

Basic information

TDR Targets ID: 960068
Echinococcus multilocularis, retinoblastoma protein 1
Source Database / ID:  GeneDB

pI: 6.3598 | Length (AA): 1109 | MW (Da): 119317 | 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

PF01857   Retinoblastoma-associated protein B domain
PF01858   Retinoblastoma-associated protein A domain
PF11934   Domain of unknown function (DUF3452)

Gene Ontology

Mouse over links to read term descriptions.
GO:0005634   nucleus  
GO:0051726   regulation of cell cycle  
GO:0006357   regulation of transcription from RNA polymerase II promoter  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
8 882 4elj (A) 53 771 29.00 0 1 0.566499 0.78
9 330 2qdj (A) 54 341 25.00 0 1 0.274952 0
10 122 1c9b (A) 119 240 12.00 0.33 0.25 0.181394 -0.19
397 885 4yoz (A) 391 964 40.00 0 1 0.357538 0.48
400 913 2r7g (A) 382 783 36.00 0 1 0.253081 0.65

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_130992)

Species Accession Gene Product
Brugia malayi Bm1_01665   Retinoblastoma-associated protein A domain containing protein
Caenorhabditis elegans CELE_C32F10.2   Protein LIN-35
Dictyostelium discoideum DDB_G0290551   Rb-like protein
Drosophila melanogaster Dmel_CG7413   Retinoblastoma-family protein
Echinococcus granulosus EgrG_000159800   retinoblastoma protein 1
Echinococcus multilocularis EmuJ_000159800   retinoblastoma protein 1
Homo sapiens ENSG00000103479   retinoblastoma-like 2
Homo sapiens ENSG00000080839   retinoblastoma-like 1
Loa Loa (eye worm) LOAG_12534   hypothetical protein
Loa Loa (eye worm) LOAG_07773   hypothetical protein
Loa Loa (eye worm) LOAG_15643   hypothetical protein
Mus musculus ENSMUSG00000027641   retinoblastoma-like 1 (p107)
Mus musculus ENSMUSG00000031666   retinoblastoma-like 2
Schistosoma japonicum Sjp_0128320   expressed protein
Schistosoma japonicum Sjp_0034000   ko:K04681 retinoblastoma-like, putative
Schistosoma mansoni Smp_024900   hypothetical protein
Schmidtea mediterranea mk4.011254.00   Putative retinoblastoma-like protein
Schmidtea mediterranea mk4.006727.00   Rb-like protein

Essentiality

EmuJ_000159800 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
CELE_C32F10.2 Caenorhabditis elegans embryonic lethal wormbase
CELE_C32F10.2 Caenorhabditis elegans larval arrest wormbase
CELE_C32F10.2 Caenorhabditis elegans larval lethal wormbase
CELE_C32F10.2 Caenorhabditis elegans slow growth wormbase
CELE_C32F10.2 Caenorhabditis elegans sterile wormbase
Show/Hide essentiality data references
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.

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

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0087 0.3288 0.3239
0.0097 0.3339 0.3302

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 EmuJ_000159800 (Echinococcus multilocularis), retinoblastoma protein 1
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