Detailed view for Tb927.5.3070

Basic information

TDR Targets ID: 20323
Trypanosoma brucei, Zinc finger, C3HC4 type (RING finger), putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.1308 | Length (AA): 538 | MW (Da): 60342 | 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

PF00097   Zinc finger, C3HC4 type (RING finger)

Gene Ontology

Mouse over links to read term descriptions.
GO:0008150   biological_process  
GO:0005575   cellular_component  
GO:0046872   metal ion binding  
GO:0008270   zinc ion binding  
GO:0005515   protein binding  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 8 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
106 164 2ecw (A) 18 76 44.00 0.000032 0.32 0.375065 0.58
106 159 1iym (A) 130 181 33.00 0 0.75 0.249272 0.3
106 164 5trb (A) 918 971 31.00 0 0.89 0.459565 -0.6
110 163 2y43 (A) 25 73 35.00 0.64 0.98 0.373772 0.26
226 324 5pal (A) 6 109 23.00 0.000045 1 0.6046 -0.54
263 323 2bl0 (C) 19 82 26.00 0.000012 0.98 0.593448 -1
265 323 4gjf (A) 18 83 24.00 0.0086 0.94 0.434388 -1.01
269 323 5e1k (A) 17 74 42.00 0.64 0.89 0.596967 -0.17

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, 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_127918)

Species Accession Gene Product
Arabidopsis thaliana AT3G26730   RING/U-box domain-containing protein
Babesia bovis BBOV_IV009010   hypothetical protein
Candida albicans CaO19.5676   similar to S. cerevisiae YLR427W
Candida albicans CaO19.13121   similar to S. cerevisiae YLR427W
Cryptosporidium hominis Chro.20190   CG12099-PB
Cryptosporidium parvum cgd2_1750   ring domain
Dictyostelium discoideum DDB_G0269996   RING zinc finger-containing protein
Drosophila melanogaster Dmel_CG12099   CG12099 gene product from transcript CG12099-RA
Echinococcus granulosus EgrG_002015400   zf-C3HC4_2 and Pfam-B_7383 and Pfam-B_16880 and Pfam-B_12017 and Pfam-B_10913 and Pfam-B_2478 and Pfam-B_3518 and Pfam-B_6278 do
Echinococcus granulosus EgrG_000739500   RING finger protein 10
Echinococcus granulosus EgrG_000739600   RING finger protein 10
Entamoeba histolytica EHI_052080   hypothetical protein
Echinococcus multilocularis EmuJ_000739500   RING finger protein 10
Echinococcus multilocularis EmuJ_000739600   RING finger protein 10
Homo sapiens ENSG00000022840   ring finger protein 10
Leishmania braziliensis LbrM.21.2090   hypothetical protein, conserved
Leishmania donovani LdBPK_081130.1   Zinc finger, C3HC4 type (RING finger), putative
Leishmania infantum LinJ.08.1130   hypothetical protein, conserved
Leishmania major LmjF.08.1240   hypothetical protein, conserved
Leishmania major LmjF.08.1215   hypothetical protein, conserved
Leishmania mexicana LmxM.08.1215   hypothetical protein, conserved
Mus musculus ENSMUSG00000041740   ring finger protein 10
Neospora caninum NCLIV_050710   zinc finger (C3HC4 RING finger) protein, putative
Oryza sativa 4329478   Os02g0516600
Plasmodium berghei PBANKA_1210400   E3 ubiquitin-protein ligase, putative
Plasmodium falciparum PF3D7_1012000   E3 ubiquitin-protein ligase, putative
Plasmodium knowlesi PKNH_0811800   E3 ubiquitin-protein ligase, putative
Plasmodium vivax PVX_094820   hypothetical protein, conserved
Plasmodium yoelii PY03640   Drosophila melanogaster LD09551p
Saccharomyces cerevisiae YLR427W   Mag2p
Schistosoma japonicum Sjp_0020530   RING finger protein 10, putative
Schistosoma mansoni Smp_038700.1   hypothetical protein
Schistosoma mansoni Smp_038700.7   hypothetical protein
Schistosoma mansoni Smp_038700.6   hypothetical protein
Schmidtea mediterranea mk4.006188.00  
Trypanosoma brucei gambiense Tbg972.5.4290   hypothetical protein, conserved
Trypanosoma brucei Tb927.5.3070   Zinc finger, C3HC4 type (RING finger), putative
Trypanosoma congolense TcIL3000_5_3400   Zinc finger, C3HC4 type (RING finger) containing protein, putative
Trypanosoma cruzi TcCLB.510173.110   Zinc finger, C3HC4 type (RING finger), putative
Trypanosoma cruzi TcCLB.509721.79   Zinc finger, C3HC4 type (RING finger), putative
Toxoplasma gondii TGME49_236780   zinc finger, C3HC4 type (RING finger) domain-containing protein
Trichomonas vaginalis TVAG_082580   conserved hypothetical protein
Trichomonas vaginalis TVAG_038490   conserved hypothetical protein
Trichomonas vaginalis TVAG_257890   conserved hypothetical protein

Essentiality

Tb927.5.3070 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.3070 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.5.3070 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.5.3070 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb927.5.3070 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1210400 Plasmodium berghei Dispensable plasmo
TGME49_236780 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

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 3 days). References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) 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: increased cell proliferation (significant gain of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) procyclic (PLO:0034) inferred from RNAi experiment (ECO:0000019) No drug identifiers listed for this gene.
Annotator: fernan@iib.unsam.edu.ar. Comment: increased cell proliferation (significant gain 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 Tb927.5.3070 (Trypanosoma brucei), Zinc finger, C3HC4 type (RING finger), putative
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