Detailed view for Tb927.10.4680

Basic information

TDR Targets ID: 11975
Trypanosoma brucei, Mutt-Nudix-related hydrolase 5, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 7.0786 | Length (AA): 298 | MW (Da): 32246 | 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

PF00293   NUDIX domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016787   hydrolase activity  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 5 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
52 202 2fvv (A) 8 142 21.00 0.08 0.56 0.698911 -0.45
62 268 1nqz (A) 33 190 34.00 0.000000016 1 0.702831 0.63
68 152 3r03 (A) 22 94 41.00 0.0019 0.64 0.470135 1.21
74 209 2pqv (A) 16 146 21.00 0.21 0.99 0.641576 0.35
96 186 1vcd (A) 19 105 22.00 0 0.31 0.394469 0.97

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 Bloodstream Form. Siegel TN
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Procyclic. 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_127325)

Species Accession Gene Product
Arabidopsis thaliana AT5G45940   CoA pyrophosphatase
Arabidopsis thaliana AT2G33980   nudix hydrolase 22
Arabidopsis thaliana AT1G28960   ppGpp pyrophosphohydrolase
Brugia malayi Bm1_26925   hydrolase, NUDIX family protein
Candida albicans CaO19.6591   similar to S. cerevisiae peroxisomal nudix hydrolase active towards coenzyme A and its derivatives
Caenorhabditis elegans CELE_Y87G2A.14   Protein NDX-8
Caenorhabditis elegans CELE_Y38A8.1   Protein NDX-3
Drosophila melanogaster Dmel_CG11095   CG11095 gene product from transcript CG11095-RA
Escherichia coli b1813   putative CoA pyrophosphohydrolase, weak 3-phosphohydroxypyruvate phosphatase
Homo sapiens ENSG00000167799   nudix (nucleoside diphosphate linked moiety X)-type motif 8
Homo sapiens ENSG00000140876   nudix (nucleoside diphosphate linked moiety X)-type motif 7
Leishmania braziliensis LbrM.35.0380   NUDIX hydrolase protein, conserved
Leishmania donovani LdBPK_360320.1   Mutt-Nudix-related hydrolase 5, putative
Leishmania infantum LinJ.36.0320   NUDIX hydrolase protein, conserved
Leishmania major LmjF.36.0300   NUDIX hydrolase protein, conserved
Leishmania mexicana LmxM.36.0300   NUDIX hydrolase protein, conserved
Loa Loa (eye worm) LOAG_06928   hydrolase
Mycobacterium leprae ML2299c   conserved hypothetical protein
Mus musculus ENSMUSG00000024869   nudix (nucleoside diphosphate linked moiety X)-type motif 8
Mus musculus ENSMUSG00000031767   nudix (nucleoside diphosphate linked moiety X)-type motif 7
Mycobacterium tuberculosis Rv3672c   Conserved hypothetical protein
Mycobacterium ulcerans MUL_4962   hypothetical protein
Oryza sativa 4338090   Os05g0209400
Oryza sativa 4345421   Os08g0375900
Oryza sativa 4345423   Os08g0376200
Saccharomyces cerevisiae YLR151C   Pcd1p
Schmidtea mediterranea mk4.003184.05   Peroxisomal coenzyme A diphosphatase ndx-8
Trypanosoma brucei gambiense Tbg972.10.5700   NUDIX hydrolase, conserved,predicted MutT/NUDIX family protein, putative
Trypanosoma brucei Tb927.10.4680   Mutt-Nudix-related hydrolase 5, putative
Trypanosoma congolense TcIL3000_10_3890   Mutt-Nudix-related hydrolase 5, putative
Trypanosoma cruzi TcCLB.508169.129   Mutt-Nudix-related hydrolase 5, putative

Essentiality

Tb927.10.4680 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3734 Mycobacterium tuberculosis non-essential nmpdr
Tb927.10.4680 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.10.4680 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.10.4680 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.10.4680 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
b1813 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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 procyclic forms . References: 21363968
cell proliferation (GO:0008283) increased (PATO:0000470) procyclic (PLO:0034) 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 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.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

No user comments are available for this gene. Log in to add comments, or register.

Enter your comment

User ()
Gene identifier Tb927.10.4680 (Trypanosoma brucei), Mutt-Nudix-related hydrolase 5, putative
Title for this comment
Comment