Detailed view for Tb927.9.10580

Basic information

TDR Targets ID: 19827
Trypanosoma brucei, 3-demethylubiquinone-9 3-methyltransferase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 8.0658 | Length (AA): 288 | MW (Da): 31206 | Paralog Number: 0

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

PF13489   Methyltransferase domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0008425   2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity  
GO:0006743   ubiquinone metabolic process  
GO:0005575   cellular_component  
GO:0004395   hexaprenyldihydroxybenzoate methyltransferase activity  
GO:0008168   methyltransferase activity  
GO:0008152   metabolic process  
GO:0006744   ubiquinone biosynthetic process  

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
36 81 1mkz (A) 13 58 26.00 0.11 0.05 0.717295 -0.22
51 96 4bsg (A) 4 46 30.00 0 0.03 0.323995 1.84
8 254 5dpm (A) 11 238 32.00 0 1 1.04294 0.15
59 175 2igt (A) 125 251 18.00 0 0.28 0.55645 -0.44
62 153 3grz (A) 173 256 38.00 0.052 0.77 0.643744 0.03
70 172 1wzn (A) 45 142 28.00 0.04 0.17 0.544939 0.3

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_127670)

Species Accession Gene Product
Arabidopsis thaliana AT2G30920   Hexaprenyldihydroxybenzoate methyltransferase
Babesia bovis BBOV_II007370   3-demethylubiquinone-9 3-methyltransferase
Babesia bovis BBOV_II007440   ubiquinone biosynthesis O-methyltransferase family protein
Brugia malayi Bm1_08805   ubiquinone biosynthesis O-methyltransferase family protein
Candida albicans CaO19.3400   similar to S. cerevisiae COQ3 (YOL096C) 3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase, involved in ubiquinone biosynthesi
Candida albicans CaO19.10903   similar to S. cerevisiae COQ3 (YOL096C) 3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase, involved in ubiquinone biosynthesi
Cryptosporidium hominis Chro.20298   Coenzyme Q3 , methyltransferase
Cryptosporidium parvum cgd2_2830   Coenzyme Q3 , methyltransferase, putative
Dictyostelium discoideum DDB_G0279037   3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase
Drosophila melanogaster Dmel_CG9249   CG9249 gene product from transcript CG9249-RA
Escherichia coli b2232   bifunctional 3-demethylubiquinone-9 3-methyltransferase/2-octaprenyl-6-hydroxy phenol methylase
Echinococcus granulosus EgrG_001016800   hexaprenyldihydroxybenzoate methyltransferase
Echinococcus multilocularis EmuJ_001016800   hexaprenyldihydroxybenzoate methyltransferase
Homo sapiens ENSG00000132423   coenzyme Q3 methyltransferase
Leishmania braziliensis LbrM.34.4230   3-demethylubiquinone-9 3-methyltransferase, putative
Leishmania donovani LdBPK_354320.1   3-demethylubiquinone-9 3-methyltransferase, putative
Leishmania infantum LinJ.35.4320   3-demethylubiquinone-9 3-methyltransferase, putative
Leishmania major LmjF.35.4250   3-demethylubiquinone-9 3-methyltransferase, putative
Leishmania mexicana LmxM.34.4250   3-demethylubiquinone-9 3-methyltransferase, putative
Loa Loa (eye worm) LOAG_08944   ubiquinone biosynthesis O-methyltransferase
Mus musculus ENSMUSG00000028247   coenzyme Q3 homolog, methyltransferase (yeast)
Mycobacterium ulcerans MUL_4684   hypothetical protein
Neospora caninum NCLIV_039200   hypothetical protein
Oryza sativa 4340157   Os06g0152300
Plasmodium berghei PBANKA_0621800   3-demethylubiquinone-9 3-methyltransferase, putative
Plasmodium falciparum PF3D7_0724300   3-demethylubiquinone-9 3-methyltransferase, putative
Plasmodium knowlesi PKNH_0319700   3-demethylubiquinone-9 3-methyltransferase, putative
Plasmodium vivax PVX_096130   3-demethylubiquinone-9 3-methyltransferase, putative
Plasmodium yoelii PY01611   3-demethylubiquinone-9 3-methyltransferase (ec 2.1.1.64) (3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase) (dhhb methyltran
Saccharomyces cerevisiae YOL096C   hexaprenyldihydroxybenzoate methyltransferase
Schistosoma japonicum Sjp_0033520   ko:K00591 hexaprenyldihydroxybenzoate methyltransferase [EC2.1.1.114], putative
Schistosoma mansoni Smp_029060   hexaprenyldihydroxybenzoate methyltransferase
Schmidtea mediterranea mk4.000263.09   Hexaprenyldihydroxybenzoate methyltransferase, mitochondrial
Trypanosoma brucei gambiense Tbg972.9.6190   3-demethylubiquinone-9 3-methyltransferase, putative
Trypanosoma brucei Tb927.9.10580   3-demethylubiquinone-9 3-methyltransferase, putative
Trypanosoma congolense TcIL3000_9_4150   3-demethylubiquinone-9 3-methyltransferase, putative
Trypanosoma cruzi TcCLB.508461.30   3-demethylubiquinone-9 3-methyltransferase, putative
Trypanosoma cruzi TcCLB.506147.60   3-demethylubiquinone-9 3-methyltransferase, putative
Toxoplasma gondii TGME49_266850   3-demethylubiquinone-9 3-O-methyltransferase
Theileria parva TP02_0197   hexaprenyldihydroxybenzoate methyltransferase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0195   3-demethylubiquinone-9 3-methyltransferase

Essentiality

Tb927.9.10580 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.1960 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.1960 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.1960 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.1960 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b2232 Escherichia coli essential goodall
PBANKA_0621800 Plasmodium berghei Slow plasmo
TGME49_266850 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • 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

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 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 Tb927.9.10580 (Trypanosoma brucei), 3-demethylubiquinone-9 3-methyltransferase, putative
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