Detailed view for Tb927.9.12430

Basic information

TDR Targets ID: 10355
Trypanosoma brucei, riboflavin kinase, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.6293 | Length (AA): 173 | MW (Da): 19573 | 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

PF01687   Riboflavin kinase

Gene Ontology

Mouse over links to read term descriptions.
GO:0008531   riboflavin kinase activity  
GO:0009231   riboflavin biosynthetic process  

Metabolic Pathways

Global map (KEGG)
Biosynthesis of secondary metabolites (KEGG)

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
1 171 3bnw (A) 1 171 99.99 0 1 2.15184 -1.47

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:

PDB tag
  • 3BNW:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

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_127161)

Species Accession Gene Product
Arabidopsis thaliana AT4G21470   bifunctional riboflavin kinase/FMN hydrolase
Arabidopsis thaliana AT5G08340   riboflavin kinaseFAD 2
Arabidopsis thaliana AT5G23330   FAD synthetase RibF1
Babesia bovis BBOV_I003450   riboflavin kinase / FAD synthetase domain containing protein
Brugia malayi Bm1_08880   riboflavin kinase
Candida albicans CaO19.11851   similar to FMN, a Riboflavin kinase
Candida albicans CaO19.4373   similar to FMN, a Riboflavin kinase
Caenorhabditis elegans CELE_R10H10.6   Protein R10H10.6
Chlamydia trachomatis CT_093   riboflavin kinase/FAD synthase
Drosophila melanogaster Dmel_CG2846   CG2846 gene product from transcript CG2846-RA
Escherichia coli b0025   bifunctional riboflavin kinase/FAD synthetase
Echinococcus granulosus EgrG_001152500   riboflavin kinase
Entamoeba histolytica EHI_033240   Riboflavin kinase / FAD synthetase, putative
Echinococcus multilocularis EmuJ_001152500   riboflavin kinase
Giardia lamblia GL50803_9698   Riboflavin kinase, FMN adenylyltransferase
Homo sapiens ENSG00000135002   riboflavin kinase
Leishmania braziliensis LbrM.34.3070   riboflavin kinase/fmn adenylyltransferase-like protein
Leishmania donovani LdBPK_353210.1   riboflavin kinase/fmn adenylyltransferase-like protein
Leishmania infantum LinJ.35.3210   riboflavin kinase/fmn adenylyltransferase-like protein
Leishmania major LmjF.35.3160   riboflavin kinase/fmn adenylyltransferase-like protein
Leishmania mexicana LmxM.34.3160   riboflavin kinase/fmn adenylyltransferase-like protein
Loa Loa (eye worm) LOAG_14151   hypothetical protein
Loa Loa (eye worm) LOAG_08840   riboflavin kinase
Mycobacterium leprae ML0852   PROBABLE BIFUNCTIONAL FAD SYNTHETASE/RIBOFLAVIN BIOSYNTHESIS PROTEIN RIBF: RIBOFLAVIN KINASE (FLAVOKINASE) + FMN ADENYLYLTRANSFE
Mus musculus ENSMUSG00000024712   riboflavin kinase
Mycobacterium tuberculosis Rv2786c   Probable bifunctional FAD synthetase/riboflavin biosynthesis protein RibF: riboflavin kinase (flavokinase) + FMN adenylyltransfe
Mycobacterium ulcerans MUL_2146   bifunctional riboflavin kinase/FMN adenylyltransferase
Neospora caninum NCLIV_059550   Riboflavin kinase / FAD synthetase domain containing protein (EC 2.7.1.26), related
Oryza sativa 4348281   Os10g0209300
Oryza sativa 4348834   Os10g0464400
Oryza sativa 4334460   Os03g0801700
Onchocerca volvulus OVOC3960  
Plasmodium berghei PBANKA_1135400   riboflavin kinase / FAD synthase family protein, putative
Plasmodium falciparum PF3D7_1359100   riboflavin kinase / FAD synthase family protein, putative
Plasmodium knowlesi PKNH_1112200   riboflavin kinase / FAD synthase family protein, putative
Plasmodium vivax PVX_114925   hypothetical protein, conserved
Plasmodium yoelii PY00264   Riboflavin kinase / FAD synthetase, putative
Saccharomyces cerevisiae YDR236C   riboflavin kinase
Schistosoma japonicum Sjp_0086090   ko:K00861 riboflavin kinase [EC2.7.1.26], putative
Schistosoma mansoni Smp_013150   riboflavin kinase/fmn adenylyltransferase
Schmidtea mediterranea mk4.000508.03   Riboflavin kinase
Trypanosoma brucei gambiense Tbg972.9.7600   riboflavin kinase, putative
Trypanosoma brucei Tb927.9.12430   riboflavin kinase, putative
Trypanosoma cruzi TcCLB.510661.174   riboflavin kinase, putative
Trypanosoma cruzi TcCLB.510741.80   riboflavin kinase, putative
Toxoplasma gondii TGME49_216740   riboflavin kinase
Treponema pallidum TP0888   riboflavin kinase/FMN adenylyltransferase (ribF)
Theileria parva TP01_0503   hypothetical protein
Trichomonas vaginalis TVAG_409820   riboflavin kinase/fmn adenylyltransferase, putative
Trichomonas vaginalis TVAG_135720   riboflavin kinase/fmn adenylyltransferase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0416   FAD synthase

Essentiality

Tb927.9.12430 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb09.211.3420 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb09.211.3420 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb09.211.3420 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.211.3420 this record Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b0025 Escherichia coli essential goodall
YDR236C Saccharomyces cerevisiae inviable yeastgenome
PBANKA_1135400 Plasmodium berghei Essential plasmo
TGME49_216740 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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 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

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

  • Tbru019101CAA;
  • Type Source Notes
    soluble recombinant protein Structural Genomics for Pathogenic Protozoa (SGPP) Tbru019101; Recombinant protein: truncated; Source: T brucei; Riboflavin kinase ;

Bibliographic References

1 literature reference was collected for this gene.

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Gene identifier Tb927.9.12430 (Trypanosoma brucei), riboflavin kinase, putative
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