Detailed view for Tb927.5.1310

Basic information

TDR Targets ID: 15062
Trypanosoma brucei, protoheme IX farnesyltransferase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 9.8827 | Length (AA): 371 | MW (Da): 40299 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 7

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

PF01040   UbiA prenyltransferase family

Gene Ontology

Mouse over links to read term descriptions.
GO:0016765   transferase activity, transferring alkyl or aryl (other than methyl) groups  
GO:0031966   mitochondrial membrane  
GO:0016021   integral to membrane  
GO:0004659   prenyltransferase activity  
GO:0008495   protoheme IX farnesyltransferase activity  
GO:0006783   heme biosynthetic process  
GO:0048034   heme O biosynthetic process  

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
187 304 4od4 (A) 33 146 31.00 0.0054 0.25 0.308406 1.21

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_127401)

Species Accession Gene Product
Arabidopsis thaliana AT2G44520   protoheme IX farnesyltransferase
Babesia bovis BBOV_II003260   prenyltransferase, UbiA family protein
Brugia malayi Bm1_37295   protoheme IX farnesyltransferase family protein
Candida albicans CaO19.10676   putative farnesyl transferase
Candida albicans CaO19.3167   putative farnesyl transferase
Caenorhabditis elegans CELE_Y46G5A.2   Protein Y46G5A.2
Dictyostelium discoideum DDB_G0288169   UbiA prenyltransferase family protein
Drosophila melanogaster Dmel_CG5037   CG5037 gene product from transcript CG5037-RA
Escherichia coli b0428   protoheme IX farnesyltransferase
Echinococcus granulosus EgrG_001125950   protoheme IX farnesyltransferase
Echinococcus granulosus EgrG_001125900   protoheme IX farnesyltransferase
Echinococcus multilocularis EmuJ_001125900   protoheme IX farnesyltransferase
Echinococcus multilocularis EmuJ_001125950   protoheme IX farnesyltransferase
Homo sapiens ENSG00000006695   COX10 heme A:farnesyltransferase cytochrome c oxidase assembly factor
Leishmania braziliensis LbrM.23.1760   protoheme IX farnesyltransferase, putative
Leishmania donovani LdBPK_231920.1   protoheme IX farnesyltransferase, putative
Leishmania infantum LinJ.23.1920   protoheme IX farnesyltransferase, putative
Leishmania major LmjF.23.1520   protoheme IX farnesyltransferase, putative
Leishmania mexicana LmxM.23.1520   protoheme IX farnesyltransferase, putative
Loa Loa (eye worm) LOAG_07170   hypothetical protein
Mycobacterium leprae ML0584   Probable cytochrome C oxidase assembly factor CtaB
Mus musculus ENSMUSG00000042148   cytochrome c oxidase assembly protein 10
Mycobacterium tuberculosis Rv1451   Probable cytochrome C oxidase assembly factor CtaB
Mycobacterium ulcerans MUL_1845   protoheme IX farnesyltransferase
Neospora caninum NCLIV_044090   cytochrome c oxidase assembly protein, putative
Plasmodium berghei PBANKA_1234100   protoheme IX farnesyltransferase, putative
Plasmodium falciparum PF3D7_0519300   protoheme IX farnesyltransferase, putative
Plasmodium knowlesi PKNH_1013800   protoheme IX farnesyltransferase, putative
Plasmodium vivax PVX_080280   cytochrome c oxidase assembly protein (heme A: farnesyltransferase), putative
Plasmodium yoelii PY06214   protoheme IX farnesyltransferase, putative
Saccharomyces cerevisiae YPL172C   Cox10p
Schistosoma japonicum Sjp_0202080   ko:K02257 protoheme IX farnesyltransferase, putative
Schistosoma japonicum Sjp_0012040   Armadillo repeat-containing protein 7, putative
Schistosoma mansoni Smp_057930   protoheme IX farnesyltransferase
Schmidtea mediterranea mk4.021419.02   Protoheme IX farnesyltransferase, mitochondrial
Schmidtea mediterranea mk4.011530.01   Protoheme IX farnesyltransferase, mitochondrial
Trypanosoma brucei gambiense Tbg972.5.1800   protoheme IX farnesyltransferase, putative
Trypanosoma brucei Tb927.5.1310   protoheme IX farnesyltransferase, putative
Trypanosoma congolense TcIL3000_5_1330   protoheme IX farnesyltransferase, putative
Trypanosoma cruzi TcCLB.509601.59   protoheme IX farnesyltransferase, putative
Trypanosoma cruzi TcCLB.509767.59   protoheme IX farnesyltransferase, putative
Toxoplasma gondii TGME49_206310   prenyltransferase, UbiA family protein
Theileria parva TP04_0267   farnesyltransferase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0306   protoheme IX farnesyltransferase

Essentiality

Tb927.5.1310 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.1310 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.5.1310 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.5.1310 this record Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.5.1310 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b0428 Escherichia coli non-essential goodall
TGME49_206310 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.

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 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

12 literature references were collected for this gene.

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Gene identifier Tb927.5.1310 (Trypanosoma brucei), protoheme IX farnesyltransferase, putative
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