Detailed view for Tb927.6.2720

Basic information

TDR Targets ID: 18528
Trypanosoma brucei, calcium-binding protein, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.1477 | Length (AA): 359 | MW (Da): 41658 | Paralog Number: 1

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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
GO:0005509   calcium ion binding  

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
176 358 3e3r (B) 22 189 33.00 0 0.93 0.757349 0.19
222 333 4cpv (A) 7 104 19.00 0 0.92 0.526778 -0.86
225 338 4guk (A) 60 189 32.00 0.15 0.13 0.390149 0.54
255 355 5joj (A) 3 97 18.00 0 0.58 0.571137 -1.28
257 334 2nco (A) 124 199 22.00 0 0.36 0.54207 -1.08
259 336 1wlz (A) 243 311 16.00 0 0.22 0.38307 -1.27

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 Bloodstream Form. Siegel TN
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Procyclic. 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_129675)

Species Accession Gene Product
Brugia malayi Bm1_43855   EF hand family protein
Drosophila melanogaster Dmel_CG31345   CG31345 gene product from transcript CG31345-RA
Drosophila melanogaster Dmel_CG10126   CG10126 gene product from transcript CG10126-RB
Echinococcus granulosus EgrG_000624500   calcyphosin protein
Echinococcus granulosus EgrG_000671900   calcyphosin protein
Echinococcus multilocularis EmuJ_000671900   calcyphosin protein
Echinococcus multilocularis EmuJ_000624500   calcyphosin protein
Homo sapiens ENSG00000152611   calcyphosine-like
Leishmania braziliensis LbrM.30.1360   calcium-binding protein, putative
Leishmania braziliensis LbrM.20.2530   hypothetical protein, conserved
Leishmania donovani LdBPK_301300.1   calcium-binding protein, putative
Leishmania donovani LdBPK_342780.1   EF-hand domain pair, putative
Leishmania infantum LinJ.34.2780   hypothetical protein, conserved
Leishmania infantum LinJ.30.1300   calcium-binding protein, putative
Leishmania major LmjF.34.2950   hypothetical protein, conserved
Leishmania major LmjF.30.1240   calcium-binding protein, putative
Leishmania mexicana LmxM.29.1240   calcium-binding protein, putative
Leishmania mexicana LmxM.33.2950   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_05043   calcyphosine isoform a
Mus musculus ENSMUSG00000039676   calcyphosine-like
Onchocerca volvulus OVOC10650  
Schistosoma japonicum Sjp_0215910   Calcyphosin-like protein, putative
Schistosoma japonicum Sjp_0009410   Calcyphosin-like protein, putative
Schistosoma mansoni Smp_019640.2   calcyphosine/tpp
Schistosoma mansoni Smp_028210   calcyphosine/tpp
Schistosoma mansoni Smp_019640.1   calcyphosine/tpp
Schmidtea mediterranea mk4.013099.02   Calcyphosine/tpp, putative
Schmidtea mediterranea mk4.005511.00   Calcyphosine/tpp, putative
Schmidtea mediterranea mk4.000987.03   Calcyphosine/tpp, putative
Schmidtea mediterranea mk4.000439.05   Calcyphosine/tpp, putative
Schmidtea mediterranea mk4.019070.00   Calcyphosine/tpp, putative
Schmidtea mediterranea mk4.024379.01   Calcyphosine/tpp, putative
Trypanosoma brucei gambiense Tbg972.6.2490   calcium-binding protein, putative
Trypanosoma brucei gambiense Tbg972.4.1650   hypothetical protein, conserved
Trypanosoma brucei Tb927.6.2720   calcium-binding protein, putative
Trypanosoma brucei Tb927.4.1740   Component of motile flagella 41
Trypanosoma congolense TcIL3000_6_2180   calcium-binding protein, putative
Trypanosoma congolense TcIL3000_4_1390   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.507925.60   calcium-binding protein, putative
Trypanosoma cruzi TcCLB.510879.190   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.509059.30   calcium-binding protein, putative
Trichomonas vaginalis TVAG_053420   calcyphosine/tpp, putative
Trichomonas vaginalis TVAG_357190   calcium-dependent protein kinase, putative
Trichomonas vaginalis TVAG_468610   calmodulin, putative
Trichomonas vaginalis TVAG_301860   calcium binding protein, putative

Essentiality

Tb927.6.2720 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.4.1740 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.4.1740 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.4.1740 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.4.1740 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Tb927.6.2720 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.6.2720 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.6.2720 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.6.2720 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
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 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) 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

  • Tbru016538AAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Tbru016538; Recombinant protein: full-length; Source: T brucei; calcium-binding protein, putative ;

Bibliographic References

1 literature reference was collected for this gene.

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Gene identifier Tb927.6.2720 (Trypanosoma brucei), calcium-binding protein, putative
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