Detailed view for Tb927.9.12790

Basic information

TDR Targets ID: 18502
Trypanosoma brucei, dolichol kinase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.1731 | Length (AA): 557 | MW (Da): 61309 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: | Predicted trans-membrane segments: 11

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:0043048   dolichyl monophosphate biosynthetic process  
GO:0004168   dolichol kinase activity  
GO:0016020   membrane  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 2 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
5 59 3d23 (B) 47 103 29.00 0.45 0.02 -0.0381567 2.65
327 441 4kjr (B) 6 153 30.00 0.12 0.02 0.0699632 2.53

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 Procyclic. Siegel TN
Upregulation Percent Ranking Stage Dataset
Mid 40-60% 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_129435)

Species Accession Gene Product
Arabidopsis thaliana AT3G45040   putative dolichol kinase
Babesia bovis BBOV_II007580   hypothetical protein
Brugia malayi Bm1_07130   hypothetical protein
Candida albicans CaO19.7893   C terminus of integral membrane dolichol kinase
Candida albicans CaO19.7894   N terminus of integral membrane dolichol kinase
Candida albicans CaO19.261   integral membrane dolichol kinase
Caenorhabditis elegans CELE_Y56A3A.36   Protein Y56A3A.36
Cryptosporidium hominis Chro.20170   transmembrane protein 15; cDNA sequence BC026973
Cryptosporidium parvum cgd2_1560   hypothetical protein
Dictyostelium discoideum DDB_G0285689   hypothetical protein
Drosophila melanogaster Dmel_CG8311   CG8311 gene product from transcript CG8311-RA
Echinococcus granulosus EgrG_000683900   dolichol kinase
Echinococcus multilocularis EmuJ_000683900   dolichol kinase
Homo sapiens ENSG00000175283   dolichol kinase
Leishmania braziliensis LbrM.34.2840   dolichol kinase, putative
Leishmania donovani LdBPK_352980.1   dolichol kinase, putative
Leishmania infantum LinJ.35.2980   dolichol kinase, putative
Leishmania major LmjF.35.2930   dolichol kinase, putative
Leishmania mexicana LmxM.34.2930   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_12687   hypothetical protein
Mus musculus ENSMUSG00000075419   dolichol kinase
Neospora caninum NCLIV_035680   Phosphatidate cytidylyltransferase family protein, related
Oryza sativa 9269270   Os02g0147200
Oryza sativa 9266165   Os02g0142250
Oryza sativa 4328285   Os02g0146500
Onchocerca volvulus OVOC9320   Dolichol kinase homolog
Saccharomyces cerevisiae YMR013C   Sec59p
Schistosoma japonicum Sjp_0060110   ko:K00902 dolichol kinase [EC2.7.1.108], putative
Schistosoma mansoni Smp_048540   hypothetical protein
Schmidtea mediterranea mk4.001889.05  
Trypanosoma brucei gambiense Tbg972.9.7840   hypothetical protein, conserved
Trypanosoma brucei Tb927.9.12790   dolichol kinase, putative
Trypanosoma cruzi TcCLB.510659.120   dolichol kinase, putative
Trypanosoma cruzi TcCLB.507013.10   dolichol kinase, putative
Toxoplasma gondii TGME49_271170   dolichol kinase
Trichomonas vaginalis TVAG_182910   dolichol kinase, putative

Essentiality

Tb927.9.12790 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.3740 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.3740 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.3740 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb09.211.3740 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
YMR013C Saccharomyces cerevisiae inviable yeastgenome
TGME49_271170 Toxoplasma gondii Probably essential sidik
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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.

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) 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 procyclic forms . 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): 0.1

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 Tb927.9.12790 (Trypanosoma brucei), dolichol kinase, putative
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