Detailed view for LmjF.34.2170

Basic information

TDR Targets ID: 26110
Leishmania major, 8-oxoguanine DNA glycosylase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 10.0397 | Length (AA): 565 | MW (Da): 63514 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | 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

PF00730   HhH-GPD superfamily base excision DNA repair protein
PF07934   8-oxoguanine DNA glycosylase, N-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0008534   oxidized purine base lesion DNA N-glycosylase activity  
GO:0003824   catalytic activity  
GO:0003684   damaged DNA binding  
GO:0003677   DNA binding  
GO:0006289   nucleotide-excision repair  
GO:0006284   base-excision repair  
GO:0006281   DNA repair  

Metabolic Pathways

Base excision repair (KEGG)

Structural information

Modbase 3D models:

There are 4 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
155 463 1m3q (A) 94 290 44.00 0 1 0.39 0.96
278 528 2abk () 10 211 17.00 0 0.89 0.15 1.24
147 458 3i0w (A) 65 257 28.00 0 1 0.189512 0.99
155 463 2xhi (A) 94 290 43.00 0 1 0.354503 1.26

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

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile amastigotes, metacyclic. Fernandes MC
Show/Hide expression data references
  • Fernandes MC Dual Transcriptome Profiling of Leishmania-Infected Human Macrophages Reveals Distinct Reprogramming Signatures.

Orthologs

Ortholog group members (OG5_127994)

Species Accession Gene Product
Arabidopsis thaliana AT1G21710   8-oxoguanine-DNA glycosylase 1
Babesia bovis BBOV_I004290   8-oxoguanine DNA glycosylase, putative
Brugia malayi Bm1_04400   Helix-hairpin-helix motif family protein
Candida albicans CaO19_7190   hypothetical protein
Candida albicans CaO19.7190   8-oxo-guanine DNA glycosylase
Cryptosporidium hominis Chro.80237   ENSANGP00000020191
Cryptosporidium parvum cgd8_2020   OGG1 like 8-oxoguanine DNA glycosylase involved in DNA repair
Dictyostelium discoideum DDB_G0292618   8-oxoguanine DNA-glycosylase
Drosophila melanogaster Dmel_CG1795   CG1795 gene product from transcript CG1795-RA
Echinococcus granulosus EgrG_001062100   N glycosylase:DNA lyase
Echinococcus multilocularis EmuJ_001062100   N glycosylase:DNA lyase
Homo sapiens ENSG00000114026   8-oxoguanine DNA glycosylase
Leishmania braziliensis LbrM.20.1670   8-oxoguanine DNA glycosylase, putative
Leishmania donovani LdBPK_341930.1   8-oxoguanine DNA glycosylase, putative
Leishmania infantum LinJ.34.1930   8-oxoguanine DNA glycosylase, putative
Leishmania major LmjF.34.2170   8-oxoguanine DNA glycosylase, putative
Leishmania mexicana LmxM.33.2170   8-oxoguanine DNA glycosylase, putative
Loa Loa (eye worm) LOAG_12878   hypothetical protein
Loa Loa (eye worm) LOAG_10615   hypothetical protein
Loa Loa (eye worm) LOAG_12877   hypothetical protein
Mus musculus ENSMUSG00000030271   8-oxoguanine DNA-glycosylase 1
Neospora caninum NCLIV_001760   N-glycosylase/DNA lyase, putative
Oryza sativa 4329639   Os02g0552600
Plasmodium berghei PBANKA_0818100   N-glycosylase/DNA lyase, putative
Plasmodium falciparum PF3D7_0917100   N-glycosylase/DNA lyase, putative
Plasmodium knowlesi PKNH_0715100   N-glycosylase/DNA lyase, putative
Plasmodium vivax PVX_099275   N-glycosylase/DNA lyase, putative
Plasmodium yoelii PY07176   OGG1 protein type 2e-related
Saccharomyces cerevisiae YML060W   8-oxoguanine glycosylase OGG1
Schistosoma japonicum Sjp_0080960   ko:K03660 N-glycosylase/DNA lyase, putative
Schistosoma mansoni Smp_192930   hypothetical protein
Schistosoma mansoni Smp_074010.1   8-oxoguanine DNA glycosylase
Schistosoma mansoni Smp_074010.2   8-oxoguanine DNA glycosylase
Schmidtea mediterranea mk4.010071.00  
Schmidtea mediterranea mk4.010167.00  
Trypanosoma brucei gambiense Tbg972.4.2440   8-oxoguanine DNA glycosylase, putative
Trypanosoma brucei Tb927.4.2480   8-oxoguanine DNA glycosylase, putative
Trypanosoma congolense TcIL3000_4_2360   8-oxoguanine DNA glycosylase, putative
Trypanosoma cruzi TcCLB.506559.170   8-oxoguanine DNA glycosylase, putative
Trypanosoma cruzi TcCLB.510229.20   8-oxoguanine DNA glycosylase, putative
Toxoplasma gondii TGME49_294880   8-oxoguanine DNA glycosylase, N-terminal domain-containing protein
Theileria parva TP01_0968   8-oxoguanine DNA-glycosylase, putative

Essentiality

LmjF.34.2170 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.2480 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.2480 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.4.2480 Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.4.2480 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_294880 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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.

User comments

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Gene identifier LmjF.34.2170 (Leishmania major), 8-oxoguanine DNA glycosylase, putative
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