Detailed view for Tb927.10.13870

Basic information

TDR Targets ID: 10906
Trypanosoma brucei, tubulin tyrosine ligase protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.6132 | Length (AA): 434 | MW (Da): 50357 | Paralog Number: 0

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

Druggability Group : DG2

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

PF03133   Tubulin-tyrosine ligase family

Gene Ontology

Mouse over links to read term descriptions.
GO:0005524   ATP binding  
GO:0004835   tubulin-tyrosine ligase activity  
GO:0006464   protein modification process  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
3 383 5vlq (B) 17 569 23.00 0 1 0.92228 0.49
68 368 4i4t (F) 63 373 24.00 0 1 0.915948 0.01
154 363 5o7a (F) 63 360 22.00 0.000015 0.75 0.606271 -0.04
348 394 2kfu (A) 98 160 43.00 0.8 0.22 0.0833949 1.3
359 413 1b0u (A) 8 58 47.00 0.35 0.19 0.455828 0.83

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_130328)

Species Accession Gene Product
Caenorhabditis elegans CELE_F25C8.5   Protein TTLL-9
Echinococcus granulosus EgrG_001048100   zinc transporter foi
Echinococcus granulosus EgrG_001013400   tubulin polyglutamylase ttll9
Echinococcus multilocularis EmuJ_001048100   zinc transporter foi
Echinococcus multilocularis EmuJ_001013400   tubulin polyglutamylase ttll9
Giardia lamblia GL50803_10382   Tubulin tyrosine ligase
Homo sapiens ENSG00000131044   tubulin tyrosine ligase-like family, member 9
Leishmania braziliensis LbrM.18.0390   tubulin tyrosine ligase protein, putative
Leishmania donovani LdBPK_180370.1   tubulin tyrosine ligase protein, putative
Leishmania infantum LinJ.18.0370   tubulin tyrosine ligase protein, putative
Leishmania major LmjF.18.0370   tubulin tyrosine ligase protein, putative
Leishmania mexicana LmxM.18.0370   tubulin tyrosine ligase protein, putative
Mus musculus ENSMUSG00000074673   tubulin tyrosine ligase-like family, member 9
Neospora caninum NCLIV_067080   tubulin-tyrosine ligase family protein, putative
Plasmodium berghei PBANKA_1113700   tubulin--tyrosine ligase, putative
Plasmodium falciparum PF3D7_0514000   tubulin--tyrosine ligase, putative
Plasmodium knowlesi PKNH_1019100   tubulin--tyrosine ligase, putative
Plasmodium vivax PVX_080540   tubulin tyrosine ligase-like protein 1, putative
Plasmodium yoelii PY02818   Tubulin-tyrosine ligase family, putative
Schistosoma japonicum Sjp_0095010   Zinc transporter ZIP5 precursor, putative
Schistosoma japonicum Sjp_0060590   Probable tubulin polyglutamylase TTLL9, putative
Schistosoma japonicum Sjp_0010090   Zinc transporter ZIP6 precursor, putative
Schistosoma japonicum Sjp_0010080   Zinc transporter ZIP10 precursor, putative
Schistosoma mansoni Smp_159970   tubulin tyrosine ligase
Schmidtea mediterranea mk4.001826.00   Tubulin tyrosine ligase-related
Schmidtea mediterranea mk4.012246.00  
Trypanosoma brucei gambiense Tbg972.10.17050   tubulin tyrosine ligase protein, putative
Trypanosoma brucei Tb927.10.13870   tubulin tyrosine ligase protein, putative
Trypanosoma congolense TcIL3000_10_11810   tubulin tyrosine ligase protein, putative
Trypanosoma cruzi TcCLB.511707.10   hypothetical protein
Trypanosoma cruzi TcCLB.511277.440   tubulin tyrosine ligase protein, putative
Toxoplasma gondii TGME49_278930   Tubulin-tyrosine ligase family protein
Trichomonas vaginalis TVAG_425960   conserved hypothetical protein
Trichomonas vaginalis TVAG_484740   conserved hypothetical protein

Essentiality

Tb927.10.13870 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.13870 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.13870 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.10.13870 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.13870 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1113700 Plasmodium berghei Dispensable plasmo
TGME49_278930 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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 3 days). References: 21363968
cell proliferation (GO:0008283) decreased (PATO:0000468) 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: decreased cell proliferation (significant loss of fitness) in bloodstream forms (stage 6 days). References: 21363968
cell proliferation (GO:0008283) normal (PATO:0000461) procyclic (PLO:0034) 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 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 Tb927.10.13870 (Trypanosoma brucei), tubulin tyrosine ligase protein, putative
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