Detailed view for Tb927.3.2300

Basic information

TDR Targets ID: 13306
Trypanosoma brucei, DNL zinc finger, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.5721 | Length (AA): 201 | MW (Da): 22084 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF05180   DNL zinc finger

Gene Ontology

Mouse over links to read term descriptions.
GO:0008270   zinc ion binding  

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
40 141 3gk0 (A) 91 196 17.00 0 0.31 0.700263 -0.44
110 188 2e2z (A) 7 85 39.00 0 1 0.879535 -0.25
152 183 1g01 (A) 384 417 53.00 0.92 1 0.652404 0.66

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 80-100% percentile Procyclic. Siegel TN
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Bloodstream Form. Siegel TN
Show/Hide expression data references
  • Siegel TN Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites.

Orthologs

Ortholog group members (OG5_128569)

Species Accession Gene Product
Arabidopsis thaliana AT3G54826   protein ZINC RIBBON 3
Babesia bovis BBOV_I003780   DNL zinc finger domain containing protein
Brugia malayi Bm1_00460   DNL zinc finger family protein
Candida albicans CaO19_6917   hypothetical protein
Candida albicans CaO19.6917   potential DNL zinc finger protein similar to S. cerevisiae FMP28 (YNL310C) mitochondrial protein
Cryptosporidium hominis Chro.50487   hypothetical protein
Cryptosporidium parvum cgd5_3660   hypothetical conserved protein
Dictyostelium discoideum DDB_G0292818   Zim17-type zinc finger-containing protein
Drosophila melanogaster Dmel_CG12379   CG12379 gene product from transcript CG12379-RB
Echinococcus granulosus EgrG_000717800   Zinc finger Zim17 type
Echinococcus multilocularis EmuJ_000717800   Zinc finger, Zim17 type
Homo sapiens ENSG00000213221   DNL-type zinc finger
Leishmania braziliensis LbrM.25.0680   hypothetical protein, conserved
Leishmania donovani LdBPK_250830.1   DNL zinc finger, putative
Leishmania infantum LinJ.25.0830   hypothetical protein, conserved
Leishmania major LmjF.25.0800   hypothetical protein, conserved
Leishmania mexicana LmxM.25.0800   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_00996   DNL zinc finger family protein
Mus musculus ENSMUSG00000075467   DNL-type zinc finger
Oryza sativa 4331164   Os02g0819700
Plasmodium berghei PBANKA_1022900   DNL-type zinc finger protein, putative
Plasmodium falciparum PF3D7_1420300   DNL-type zinc finger protein
Plasmodium knowlesi PKNH_1337700   DNL-type zinc finger protein, putative
Plasmodium vivax PVX_085465   hypothetical protein, conserved
Plasmodium yoelii PY01199   Drosophila melanogaster CG12379 gene product
Saccharomyces cerevisiae YNL310C   Zim17p
Schistosoma japonicum Sjp_0200350   DNL-type zinc finger protein, putative
Schistosoma mansoni Smp_117390   hypothetical protein
Schistosoma mansoni Smp_191740   hypothetical protein
Trypanosoma brucei gambiense Tbg972.3.2280   hypothetical protein, conserved
Trypanosoma brucei Tb927.3.2300   DNL zinc finger, putative
Trypanosoma congolense TcIL3000_0_42310   DNL zinc finger containing protein, putative
Trypanosoma cruzi TcCLB.508479.274   hypothetical protein, conserved
Toxoplasma gondii TGME49_260340   DNL zinc finger protein
Theileria parva TP01_0459   hypothetical protein, conserved

Essentiality

Tb927.3.2300 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.3.2300 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.3.2300 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.3.2300 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.3.2300 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
YNL310C Saccharomyces cerevisiae inviable yeastgenome
TGME49_260340 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • 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.
  • 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.
  • 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
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) normal (PATO:0000461) bloodstream stage trypomastigotes (PLO:0027) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: normal cell proliferation (no significant loss or gain of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: decreased cell proliferation (significant loss of fitness) in differentiation of procyclic to bloodstream forms . References: 21363968

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

1 literature reference was collected for this gene.

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Gene identifier Tb927.3.2300 (Trypanosoma brucei), DNL zinc finger, putative
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