Detailed view for Tb927.11.16770

Basic information

TDR Targets ID: 19998
Trypanosoma brucei, glucosamine-6-phosphate isomerase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.8655 | Length (AA): 280 | MW (Da): 31087 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | 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

PF01182   Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase

Gene Ontology

Mouse over links to read term descriptions.
GO:0006046   N-acetylglucosamine catabolic process  
GO:0005575   cellular_component  
GO:0004342   glucosamine-6-phosphate deaminase activity  
GO:0006044   N-acetylglucosamine metabolic process  
GO:0005975   carbohydrate metabolic process  

Structural information

Modbase 3D models:

There are 3 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
1 277 1ne7 (A) 1 278 54.00 0 1 1.73719 -1.37
1 270 1fs5 (A) 1 265 53.00 0 1 1.68779 -1.38
1 262 5hj5 (A) 1 262 52.00 0 1 1.70531 -1.56

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_128189)

Species Accession Gene Product
Candida albicans CaO19.9703   C. albicans glucosamine-6-phosphate deaminase
Candida albicans CaO19.2156   N terminal truncated version of C. albicans glucosamine-6-phosphate deaminase
Caenorhabditis elegans CELE_T03F6.3   Protein T03F6.3
Dictyostelium discoideum DDB_G0278873   glucosamine-6-phosphate deaminase
Dictyostelium discoideum DDB_G0286195   PIG-L family protein
Drosophila melanogaster Dmel_CG6957   CG6957 gene product from transcript CG6957-RC
Escherichia coli b0678   glucosamine-6-phosphate deaminase
Entamoeba histolytica EHI_174640   glucosamine-6-phosphate isomerase, putative
Giardia lamblia GL50803_8245   Glucosamine-6-phosphate deaminase
Giardia lamblia GL50803_10829   Glucosamine-6-phosphate deaminase
Homo sapiens ENSG00000163281   glucosamine-6-phosphate deaminase 2
Homo sapiens ENSG00000113552   glucosamine-6-phosphate deaminase 1
Leishmania braziliensis LbrM.32.3550   glucosamine-6-phosphate isomerase, putative
Leishmania donovani LdBPK_323460.1   glucosamine-6-phosphate isomerase, putative
Leishmania infantum LinJ.32.3460   glucosamine-6-phosphate isomerase, putative
Leishmania major LmjF.32.3260   glucosamine-6-phosphate isomerase, putative
Leishmania mexicana LmxM.31.3260   glucosamine-6-phosphate isomerase, putative,glucosamine-6-phosphate deaminase, putative
Mus musculus ENSMUSG00000029209   glucosamine-6-phosphate deaminase 2
Mus musculus ENSMUSG00000052102   glucosamine-6-phosphate deaminase 1
Schistosoma japonicum Sjp_0304390   ko:K02564 glucosamine-6-phosphate isomerase, putative
Schistosoma mansoni Smp_091850   glucosamine-6-phosphate isomerase
Schmidtea mediterranea mk4.001705.06   Probable glucosamine-6-phosphate isomerase
Trypanosoma brucei gambiense Tbg972.11.18920   glucosamine-6-phosphate isomerase, putative
Trypanosoma brucei Tb927.11.16770   glucosamine-6-phosphate isomerase, putative
Trypanosoma congolense TcIL3000.11.16680   glucosamine-6-phosphate isomerase, putative
Trypanosoma cruzi TcCLB.511025.50   glucosamine-6-phosphate isomerase, putative
Trypanosoma cruzi TcCLB.511531.50   glucosamine-6-phosphate isomerase, putative
Trichomonas vaginalis TVAG_365520   glucosamine-6-phosphate isomerase, putative

Essentiality

Tb927.11.16770 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.8520 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.8520 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.8520 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb11.01.8520 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0678 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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 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

Druggability index (range: 0 to 1): 0.2

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
Trypanosoma brucei 6-phosphogluconolactonase 266 aa 27.9% 226 aa Compounds References
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 Tb927.11.16770 (Trypanosoma brucei), glucosamine-6-phosphate isomerase, putative
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