Detailed view for LmxM.21.0620

Basic information

TDR Targets ID: 448756
Leishmania mexicana, DNA polymerase eta, putative
Source Database / ID: 

pI: 6.6362 | Length (AA): 772 | MW (Da): 82723 | Paralog Number: 1

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

Druggability Group : DG

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

PF00817   impB/mucB/samB family

Gene Ontology

Mouse over links to read term descriptions.
GO:0003684   damaged DNA binding  
GO:0006281   DNA repair  

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
1 510 3gqc (A) 372 807 17.00 0 1 0.349822 2.03
17 462 4j9o (A) 7 371 34.00 0 1 0.59602 1.02
19 116 4f4w (A) 3 106 23.00 0 0.62 0.344143 -0.35
19 146 4f4w (A) 3 112 35.00 0.0032 0.91 0.201103 0.46
202 305 3p5m (A) 44 148 36.00 0.92 0.08 0.055015 2.28

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_128521)

Species Accession Gene Product
Arabidopsis thaliana AT5G44740   Y-family DNA polymerase H
Brugia malayi Bm1_21045   ImpB/MucB/SamB family protein
Candida albicans CaO19.866   similar to S. cerevisiae DNA polymerase pol-eta, involved in the bypass of distorted DNA lesions
Candida albicans CaO19.8485   similar to S. cerevisiae DNA polymerase pol-eta, involved in the bypass of distorted DNA lesions
Caenorhabditis elegans CELE_F53A3.2   Protein POLH-1
Cryptosporidium parvum cgd4_3920   DinB/family X-type DNA polymerase
Drosophila melanogaster Dmel_CG7143   CG7143 gene product from transcript CG7143-RA
Echinococcus granulosus EgrG_001106600   dna polymerase eta
Echinococcus multilocularis EmuJ_001106600   dna polymerase eta
Homo sapiens ENSG00000170734   polymerase (DNA directed), eta
Leishmania braziliensis LbrM.21.0680   DNA polymerase eta, putative
Leishmania braziliensis LbrM.21.0690   DNA polymerase eta, putative
Leishmania infantum LinJ.21.0680   DNA polymerase eta, putative
Leishmania infantum LinJ.21.0690   DNA polymerase eta, putative
Leishmania major LmjF.21.0630   DNA polymerase eta, putative
Leishmania major LmjF.21.0620   DNA polymerase eta, putative
Leishmania mexicana LmxM.21.0630  
Leishmania mexicana LmxM.21.0620   DNA polymerase eta, putative
Loa Loa (eye worm) LOAG_06542   hypothetical protein
Mus musculus ENSMUSG00000023953   polymerase (DNA directed), eta (RAD 30 related)
Neospora caninum NCLIV_042210   Pc21g17280 protein, related
Oryza sativa 4325305   Os01g0757800
Saccharomyces cerevisiae YDR419W   Rad30p
Schistosoma japonicum Sjp_0072790   ko:K03509 DNA polymerase eta subunit, putative
Schistosoma japonicum Sjp_0116210   ko:K03509 DNA polymerase eta subunit, putative
Schistosoma mansoni Smp_136180   DNA polymerase eta
Schmidtea mediterranea mk4.000539.14  
Trypanosoma brucei gambiense Tbg972.10.2030   DNA polymerase eta, putative
Trypanosoma brucei Tb927.10.1710   DNA polymerase eta, putative
Trypanosoma congolense TcIL3000_10_1450   DNA polymerase eta, putative
Trypanosoma cruzi TcCLB.511911.120   DNA polymerase eta, putative
Trypanosoma cruzi TcCLB.508637.79   DNA polymerase eta, putative
Toxoplasma gondii TGME49_234580   ImpB/MucB/SamB family protein

Essentiality

LmxM.21.0620 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.1710 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.1710 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.1710 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.1710 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_234580 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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 polymerase (DNA directed), eta Compounds References
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.

User comments

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Gene identifier LmxM.21.0620 (Leishmania mexicana), DNA polymerase eta, putative
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