Detailed view for TcIL3000_8_5320

Basic information

TDR Targets ID: 556503
Trypanosoma congolense, apurinic/apyrimidinic endonuclease, putative
Source Database / ID: 

pI: 9.8054 | Length (AA): 400 | MW (Da): 44343 | Paralog Number: 0

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

PF03372   Endonuclease/Exonuclease/phosphatase family

Gene Ontology

Mouse over links to read term descriptions.
GO:0004518   nuclease activity  
GO:0006281   DNA repair  

Metabolic Pathways

Base excision repair (KEGG)

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
54 399 2j63 (A) 93 445 62.00 0 1 1.6106 -1.06

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_126768)

Species Accession Gene Product
Arabidopsis thaliana AT3G48425   DNAse I-like superfamily protein
Arabidopsis thaliana AT2G41460   apurinic endonuclease-redox protein
Arabidopsis thaliana AT4G36050   endonuclease/exonuclease/phosphatase family protein
Brugia malayi Bm1_24435   exodeoxyribonuclease III family protein
Candida albicans CaO19.9394   similar to S. cerevisiae APN2 (YBL019W) DNA repair apurinic/apyrimidinic endonuclease
Candida albicans CaO19.1836   similar to S. cerevisiae APN2 (YBL019W) DNA repair apurinic/apyrimidinic endonuclease
Caenorhabditis elegans CELE_R09B3.1   Protein EXO-3, isoform B
Cryptosporidium hominis Chro.20012   dna-(apurinic or apyrimidinic site) lyase
Cryptosporidium parvum cgd2_40   conserved hypothetical protein
Dictyostelium discoideum DDB_G0277701   hypothetical protein
Drosophila melanogaster Dmel_CG3178   Recombination repair protein 1
Escherichia coli b1749   exonuclease III
Echinococcus granulosus EgrG_000078600   DNA apurinic or apyrimidinic site lyase
Entamoeba histolytica EHI_046670   exodeoxyribonuclease III, putative
Echinococcus multilocularis EmuJ_000078600   DNA (apurinic or apyrimidinic site) lyase
Giardia lamblia GL50803_9834   Endonuclease/Exonuclease/phosphatase
Homo sapiens ENSG00000100823   APEX nuclease (multifunctional DNA repair enzyme) 1
Homo sapiens 27301   APEX nuclease (apurinic/apyrimidinic endonuclease) 2
Leishmania braziliensis LbrM.16.0670   apurinic/apyrimidinic endonuclease-redox protein
Leishmania donovani LdBPK_160680.1   apurinic/apyrimidinic endonuclease-redox protein
Leishmania infantum LinJ.16.0680   apurinic/apyrimidinic endonuclease-redox protein
Leishmania major LmjF.16.0680   apurinic/apyrimidinic endonuclease-redox protein
Leishmania mexicana LmxM.16.0680   apurinic/apyrimidinic endonuclease-redox protein,AP-endonuclease
Loa Loa (eye worm) LOAG_01360   exodeoxyribonuclease III family protein
Mus musculus ENSMUSG00000035960   apurinic/apyrimidinic endonuclease 1
Mus musculus ENSMUSG00000025269   apurinic/apyrimidinic endonuclease 2
Mus musculus 102642865   DNA-(apurinic or apyrimidinic site) lyase-like
Mycobacterium tuberculosis Rv0427c   Probable exodeoxyribonuclease III protein XthA (exonuclease III) (EXO III) (AP endonuclease VI)
Mycobacterium ulcerans MUL_1374   exodeoxyribonuclease III protein XthA
Neospora caninum NCLIV_059670   hypothetical protein
Oryza sativa 4327961   Os01g0801100
Oryza sativa 4327960   Os01g0801000
Oryza sativa 4351982   Os12g0279600
Oryza sativa 4347697   Os09g0536000
Plasmodium berghei PBANKA_0404100   AP endonuclease (DNA-[apurinic or apyrimidinic site] lyase), putative
Plasmodium falciparum PF3D7_0305600   AP endonuclease (DNA-[apurinic or apyrimidinic site] lyase), putative
Plasmodium knowlesi PKNH_0837100   AP endonuclease (DNA-[apurinic or apyrimidinic site] lyase), putative
Plasmodium vivax PVX_119405   AP endonuclease (DNA-[apurinic or apyrimidinic site] lyase), putative
Plasmodium yoelii PY02645   putative AP endonuclease-related
Saccharomyces cerevisiae YBL019W   DNA-(apurinic or apyrimidinic site) lyase APN2
Schistosoma japonicum Sjp_0123800   DNA-(apurinic or apyrimidinic site) lyase 2, putative
Schistosoma japonicum Sjp_0035270   ko:K10772 AP endonuclease 2, putative
Schistosoma japonicum Sjp_0006220   ko:K10771 AP endonuclease 1, putative
Schistosoma japonicum Sjp_0305970   DNA-(apurinic or apyrimidinic site) lyase 2, putative
Schistosoma mansoni Smp_167500   ap endonuclease
Schistosoma mansoni Smp_051320   ap endonuclease
Schmidtea mediterranea mk4.002319.01   Exonuclease III homolog
Schmidtea mediterranea mk4.036851.00   DNA-(apurinic or apyrimidinic site) lyase
Schmidtea mediterranea mk4.006369.00   Ap endonuclease, putative
Schmidtea mediterranea mk4.054051.01  
Trypanosoma brucei gambiense Tbg972.8.5480   apurinic/apyrimidinic endonuclease, putative
Trypanosoma brucei Tb927.8.5510   apurinic/apyrimidinic endonuclease, putative
Trypanosoma congolense TcIL3000_8_5320   apurinic/apyrimidinic endonuclease, putative
Trypanosoma cruzi TcCLB.509901.170   apurinic/apyrimidinic endonuclease
Trypanosoma cruzi TcCLB.507083.30   apurinic/apyrimidinic endonuclease, putative
Toxoplasma gondii TGME49_216600   exonuclease III APE
Treponema pallidum TP0125   exodeoxyribonuclease (exoA)
Theileria parva TP03_0022   hypothetical protein
Trichomonas vaginalis TVAG_116970   ap endonuclease, putative
Trichomonas vaginalis TVAG_015160   ap endonuclease, putative
Wolbachia endosymbiont of Brugia malayi Wbm0729   exonuclease III

Essentiality

TcIL3000_8_5320 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.8.5510 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.5510 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.5510 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.5510 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b1749 Escherichia coli non-essential goodall
CELE_R09B3.1 Caenorhabditis elegans embryonic lethal wormbase
CELE_R09B3.1 Caenorhabditis elegans larval arrest wormbase
PBANKA_0404100 Plasmodium berghei Dispensable plasmo
TGME49_216600 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.

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 APEX nuclease (multifunctional DNA repair enzyme) 1 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.

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Gene identifier TcIL3000_8_5320 (Trypanosoma congolense), apurinic/apyrimidinic endonuclease, putative
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