Detailed view for Tb927.10.11620

Basic information

TDR Targets ID: 18608
Trypanosoma brucei, calcium-transporting ATPase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.0741 | Length (AA): 1100 | MW (Da): 119556 | Paralog Number: 1

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 10

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

PF00122   E1-E2 ATPase
PF00689   Cation transporting ATPase, C-terminus
PF08282   haloacid dehalogenase-like hydrolase
PF13246   Cation transport ATPase (P-type)

Gene Ontology

Mouse over links to read term descriptions.
GO:0016021   integral to membrane  
GO:0016020   membrane  
GO:0015085   calcium ion transmembrane transporter activity  
GO:0005524   ATP binding  
GO:0005388   calcium-transporting ATPase activity  
GO:0003824   catalytic activity  
GO:0000166   nucleotide binding  
GO:0008152   metabolic process  
GO:0006816   calcium ion transport  
GO:0006812   cation transport  
GO:0006754   ATP biosynthetic process  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
37 1037 3wgu (A) 26 1004 18.00 0.000000000019 1 0.993 0.86
74 1036 2zxe (A) 62 1010 24.00 0 1 1.00325 0.71
748 789 3fvv (A) 173 213 24.00 0 0.09 0.252982 -0.11
750 810 3a1c (A) 606 666 43.00 0 0.29 0.460255 0.33

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
Mid 40-60% percentile Procyclic. Siegel TN
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_152262)

Species Accession Gene Product
Leishmania braziliensis LbrM.33.1200   calcium-transporting ATPase, putative
Leishmania donovani LdBPK_331060.1   calcium-transporting ATPase, putative
Leishmania infantum LinJ.33.1060   calcium-transporting ATPase, putative
Leishmania major LmjF.33.1010   calcium-transporting ATPase, putative
Leishmania mexicana LmxM.32.1010   calcium-transporting ATPase, putative
Trypanosoma brucei gambiense Tbg972.10.13990   calcium-transporting ATPase, putative
Trypanosoma brucei Tb11.v5.0712   calcium-transporting ATPase, putative
Trypanosoma brucei Tb927.10.11620   calcium-transporting ATPase, putative
Trypanosoma cruzi TcCLB.509647.150   calcium-transporting ATPase, putative

Essentiality

Tb927.10.11620 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.10.11620 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.11620 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.11620 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.11620 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • 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

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) 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 procyclic forms . 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

Druggability index (range: 0 to 1): 0.5

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
Species Target Length Identity Alignment span Linked Drugs Reference
Rattus norvegicus Sarcoplasmic/endoplasmic reticulum calcium ATPase 1 994 aa 26.6% 879 aa Compounds References
Oryctolagus cuniculus Sarcoplasmic/endoplasmic reticulum calcium ATP-ase 1001 aa 26.8% 883 aa Compounds References
Rattus norvegicus Sarcoplasmic/endoplasmic reticulum calcium ATPase 2 1043 aa 27.2% 874 aa Compounds References
Trypanosoma cruzi P-type H+-ATPase, putative 645 aa 24.0% 637 aa Compounds References
Obtained from network model

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.026 0.2991 0.4554
0.0305 0.2785 0.4155
0.0284 0.2787 0.4158
0.0243 0.2506 0.4558
0.0469 0.2527 0.4136
0.0243 0.2506 0.4558
0.0243 0.2506 0.4558
0.0105 0.2822 0.4451
0.0516 0.3032 0.4138
0.0243 0.2506 0.4558
0.0135 0.2618 0.4113
0.0243 0.2506 0.4558
0.0414 0.2558 0.4148
0.0243 0.2506 0.4558
0.048 0.2968 0.4605
0.0233 0.2656 0.4113
0.0284 0.2787 0.4158

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

4 literature references were collected for this gene.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

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Gene identifier Tb927.10.11620 (Trypanosoma brucei), calcium-transporting ATPase, putative
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