Detailed view for TcCLB.511127.350

Basic information

TDR Targets ID: 33420
Trypanosoma cruzi, Plus-3 domain/Zinc finger, C3HC4 type (RING finger), putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 6.4949 | Length (AA): 429 | MW (Da): 47076 | Paralog Number: 1

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

Druggability Group : DG3

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

PF03126   Plus-3 domain
PF13920   Zinc finger, C3HC4 type (RING finger)

Gene Ontology

Mouse over links to read term descriptions.
GO:0016593   Cdc73/Paf1 complex  
GO:0005634   nucleus  
GO:0008270   zinc ion binding  
GO:0005515   protein binding  
GO:0003677   DNA binding  
GO:0016570   histone modification  
GO:0006368   RNA elongation from RNA polymerase II promoter  
GO:0006352   transcription initiation  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 6 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
7 140 2db9 (A) 18 142 23.00 0 0.54 0.49 -0.66
5 150 2db9 (A) 12 149 18.00 0 0.47 0.481526 0.08
174 276 4zia (A) 3 103 13.00 0 0.11 0.392793 -0.52
372 426 4gb0 (A) 5 64 29.00 0 0.73 0.391905 -0.12
375 429 2ecv (A) 14 74 33.00 0.94 1 0.192105 0.36
381 420 5dka (A) 36 79 43.00 0.83 0.98 0.50914 -0.48

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 metacyclic. Smircich P
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile epimastigote. Smircich P
Show/Hide expression data references
  • Smircich P Ribosome profiling reveals translation control as a key mechanism generating differential gene expression in Trypanosoma cruzi.

Orthologs

Ortholog group members (OG5_143853)

Species Accession Gene Product
Leishmania braziliensis LbrM.09.0440   hypothetical protein, conserved
Leishmania donovani LdBPK_090480.1   Zinc finger, C3HC4 type (RING finger), putative
Leishmania infantum LinJ.09.0480   hypothetical protein, conserved
Leishmania major LmjF.09.0430   hypothetical protein, conserved
Leishmania mexicana LmxM.09.0430   hypothetical protein, conserved
Oryza sativa 4347030   Os09g0410400
Trypanosoma brucei gambiense Tbg972.11.13910   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.12440   Plus-3 domain/Zinc finger, C3HC4 type (RING finger), putative
Trypanosoma congolense TcIL3000_0_20330   Plus-3 domain/Zinc finger, C3HC4 type (RING finger) containing protein, putative
Trypanosoma congolense TcIL3000_0_24910   Plus-3 domain/Zinc finger, C3HC4 type (RING finger) containing protein, putative
Trypanosoma cruzi TcCLB.511127.350   Plus-3 domain/Zinc finger, C3HC4 type (RING finger), putative
Trypanosoma cruzi TcCLB.503657.50   Plus-3 domain/Zinc finger, C3HC4 type (RING finger), putative

Essentiality

TcCLB.511127.350 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.4280 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.4280 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.01.4280 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.4280 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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.
  • 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.
  • 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.
  • 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
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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 TcCLB.511127.350 (Trypanosoma cruzi), Plus-3 domain/Zinc finger, C3HC4 type (RING finger), putative
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