Detailed view for cgd7_3350

Basic information

TDR Targets ID: 377245
Cryptosporidium parvum, eukaryotic DNA topoisomerase I

Source Database / ID: 

pI: 8.7865 | Length (AA): 653 | MW (Da): 76177 | Paralog Number: 0

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

Pfam domains

PF01028   Eukaryotic DNA topoisomerase I, catalytic core
PF02919   Eukaryotic DNA topoisomerase I, DNA binding fragment
PF14370   C-terminal topoisomerase domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005694   chromosome  
GO:0003917   DNA topoisomerase type I activity  
GO:0003677   DNA binding  
GO:0006265   DNA topological change  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
42 653 1ej9 (A) 203 765 48.00 0 1 1.09281 0.98
479 599 4uos (A) 1 121 17.00 0.0099 0.02 0.404899 -0.74
601 653 2b9s (B) 211 262 54.00 0.00000034 0.53 0.671764 -0.13

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_127702)

Species Accession Gene Product
Arabidopsis thaliana AT5G55310   DNA topoisomerase 1 beta
Arabidopsis thaliana AT5G55300   DNA topoisomerase 1
Babesia bovis BBOV_II007450   DNA topoisomerase
Brugia malayi Bm1_41680   DNA topoisomerase I
Candida albicans CaO19.96   likely DNA topoisomerase I similar to S. cerevisiae TOP1 (YOL006C)
Candida albicans CaO19.7742   likely DNA topoisomerase I similar to S. cerevisiae TOP1 (YOL006C)
Caenorhabditis elegans CELE_M01E5.5   Protein TOP-1, isoform A
Cryptosporidium hominis Chro.70373   DNA topoisomerase I
Cryptosporidium parvum cgd7_3350   eukaryotic DNA topoisomerase I
Dictyostelium discoideum DDB_G0283205   DNA topoisomerase I
Drosophila melanogaster Dmel_CG6146   Topoisomerase 1
Echinococcus granulosus EgrG_000700500   DNA topoisomerase 1
Echinococcus multilocularis EmuJ_000700500   DNA topoisomerase 1
Homo sapiens ENSG00000198900   topoisomerase (DNA) I
Homo sapiens ENSG00000184428   topoisomerase (DNA) I, mitochondrial
Leishmania braziliensis LbrM.20.3020   DNA topoisomerase IB, large subunit
Leishmania donovani LdBPK_343220.1   DNA topoisomerase IB, large subunit
Leishmania infantum LinJ.34.3220   DNA topoisomerase IB, large subunit
Leishmania major LmjF.34.3440   DNA topoisomerase IB, large subunit
Leishmania mexicana LmxM.33.3440   DNA topoisomerase IB, large subunit
Loa Loa (eye worm) LOAG_09811   DNA topoisomerase I
Mus musculus ENSMUSG00000070544   topoisomerase (DNA) I
Mus musculus ENSMUSG00000000934   DNA topoisomerase 1, mitochondrial
Neospora caninum NCLIV_049500   hypothetical protein
Oryza sativa 4344685   Os08g0154600
Plasmodium berghei PBANKA_1110100   topoisomerase I, putative
Plasmodium falciparum PF3D7_0510500   topoisomerase I
Plasmodium knowlesi PKNH_1023100   topoisomerase I, putative
Plasmodium vivax PVX_098085   topoisomerase I, putative
Plasmodium yoelii PY05226   Eukaryotic DNA topoisomerase I, DNA binding, putative
Saccharomyces cerevisiae YOL006C   DNA topoisomerase 1
Schistosoma japonicum Sjp_0092890   ko:K03163 DNA topoisomerase I, putative
Schistosoma japonicum Sjp_0317930   IPR011010,DNA breaking-rejoining enzyme, catalytic core,domain-containing
Schistosoma mansoni Smp_033050.2   DNA topoisomerase type I
Schistosoma mansoni Smp_033050.3   DNA topoisomerase type I
Schistosoma mansoni Smp_033050.1   DNA topoisomerase type I
Schmidtea mediterranea mk4.009207.00   DNA topoisomerase 1
Trypanosoma brucei gambiense Tbg972.4.1160   DNA topoisomerase IB, large subunit, putative
Trypanosoma brucei Tb927.4.1330   DNA topoisomerase IB, large subunit
Trypanosoma cruzi TcCLB.508693.20   DNA topoisomerase IB, large subunit, putative
Toxoplasma gondii TGME49_234360   DNA topoisomerase I, putative
Theileria parva TP02_0198   DNA topoisomerase I, putative

Essentiality

cgd7_3350 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.1330 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.4.1330 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.1330 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.4.1330 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_M01E5.5 Caenorhabditis elegans embryonic lethal wormbase
CELE_M01E5.5 Caenorhabditis elegans larval arrest wormbase
CELE_M01E5.5 Caenorhabditis elegans larval lethal wormbase
CELE_M01E5.5 Caenorhabditis elegans slow growth wormbase
TGME49_234360 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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 log in using your TDR Targets username and password and send them to us using the corresponding form in this page (only visible to registered users) or 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
Saccharomyces cerevisiae DNA topoisomerase 1 Compounds References
Rattus norvegicus DNA topoisomerase 1 Compounds References
Homo sapiens topoisomerase (DNA) I Compounds References
Trypanosoma cruzi DNA topoisomerase IB, large subunit, putative Compounds References
Plasmodium falciparum topoisomerase I Compounds References
Mus musculus topoisomerase (DNA) I Compounds References
Leishmania major DNA topoisomerase IB, large subunit Compounds References
Chlorocebus aethiops DNA topoisomerase 1 Compounds References
Trypanosoma brucei DNA topoisomerase IB, large subunit 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.

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User comments

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Gene identifier cgd7_3350 (Cryptosporidium parvum), eukaryotic DNA topoisomerase I
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