Detailed view for Tb927.7.4290

Basic information

TDR Targets ID: 18667
Trypanosoma brucei, Nuclear distribution protein C homolog
Source Database / ID:  TriTrypDB  GeneDB

pI: 5.3695 | Length (AA): 297 | MW (Da): 33703 | 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

PF04969   CS domain
PF14050   N-terminal conserved domain of Nudc.

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 4 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
2 88 5ctq (A) 393 484 15.00 0.83 0.28 0.477629 -0.64
58 121 2i1k (A) 378 452 31.00 0.62 0.2 0.718088 -1.89
131 253 1wfi (A) 2 125 53.00 0 1 1.02274 -0.1
217 274 2qnw (A) 9 66 28.00 0.47 0.25 0.613886 -1.2

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, 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_128369)

Species Accession Gene Product
Arabidopsis thaliana AT5G53400   protein BOBBER 1
Arabidopsis thaliana AT4G27890   protein BOBBER 2
Babesia bovis BBOV_III002520   nuclear movement family protein
Brugia malayi Bm1_07390   Nuclear movement protein
Caenorhabditis elegans CELE_F53A2.4   Protein NUD-1
Cryptosporidium hominis Chro.70486   nuclear distribution gene C
Cryptosporidium parvum cgd7_4390   NudC ortholog
Dictyostelium discoideum DDB_G0286159   nuclear migration protein nudC
Drosophila melanogaster Dmel_CG9710   CG9710 gene product from transcript CG9710-RB
Echinococcus granulosus EgrG_000463400   nuclear migration protein nudc
Entamoeba histolytica EHI_130990   nuclear movement protein, putative
Echinococcus multilocularis EmuJ_000463400   nuclear migration protein nudc
Homo sapiens ENSG00000090273   nudC nuclear distribution protein
Leishmania braziliensis LbrM.14.0460   hypothetical protein, conserved
Leishmania donovani LdBPK_140460.1   N-terminal conserved domain of Nudc./CS domain containing protein, putative
Leishmania infantum LinJ.14.0460   hypothetical protein, conserved
Leishmania major LmjF.14.0450   hypothetical protein, conserved
Leishmania mexicana LmxM.14.0450   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_15089   hypothetical protein
Loa Loa (eye worm) LOAG_06827   hypothetical protein
Mus musculus ENSMUSG00000028851   nuclear distribution gene C homolog (Aspergillus)
Neospora caninum NCLIV_033320   hypothetical protein
Oryza sativa 4340572   Os06g0231300
Plasmodium berghei PBANKA_1350600   nuclear movement protein, putative
Plasmodium falciparum PF3D7_1336800   nuclear movement protein, putative
Plasmodium knowlesi PKNH_1264500   nuclear movement protein, putative
Plasmodium vivax PVX_082770   nuclear movement protein, putative
Plasmodium yoelii PY06251   nuclear distribution gene C homolog
Schistosoma japonicum Sjp_0072200   Nuclear migration protein nudC, putative
Schistosoma mansoni Smp_103320   nuclear movement protein nudc
Schmidtea mediterranea mk4.009652.00   Nuclear migration protein nudC
Schmidtea mediterranea mk4.002934.08   Nuclear migration protein nudC
Trypanosoma brucei gambiense Tbg972.7.4850   hypothetical protein, conserved
Trypanosoma brucei Tb927.7.4290   Nuclear distribution protein C homolog
Trypanosoma congolense TcIL3000_7_3480   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508089.30   N-terminal conserved domain of Nudc./CS domain containing protein, putative
Trypanosoma cruzi TcCLB.508857.50   N-terminal conserved domain of Nudc./CS domain containing protein, putative
Toxoplasma gondii TGME49_233680   nuclear movement family protein
Toxoplasma gondii TGME49_324500   nuclear distribution protein C, putative
Theileria parva TP01_0519   hypothetical protein
Trichomonas vaginalis TVAG_310240   nuclear movement protein nudc, putative

Essentiality

Tb927.7.4290 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb927.7.4290 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.7.4290 this record Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb927.7.4290 this record Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.7.4290 this record Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
CELE_F53A2.4 Caenorhabditis elegans embryonic lethal wormbase
CELE_F53A2.4 Caenorhabditis elegans slow growth wormbase
CELE_F53A2.4 Caenorhabditis elegans sterile wormbase
PBANKA_1350600 Plasmodium berghei Essential plasmo
TGME49_233680 Toxoplasma gondii Probably essential sidik
TGME49_324500 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
cell proliferation (GO:0008283) decreased (PATO:0000468) 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: decreased cell proliferation (significant loss 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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User comments

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Gene identifier Tb927.7.4290 (Trypanosoma brucei), Nuclear distribution protein C homolog
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