Detailed view for Tb927.11.16340

Basic information

TDR Targets ID: 20068
Trypanosoma brucei, Importin-beta N-terminal domain/HEAT-like repeat, putative
Source Database / ID:  TriTrypDB  GeneDB

pI: 4.5113 | Length (AA): 1149 | MW (Da): 124848 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 0

Druggability Group : DG2

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

PF03810   Importin-beta N-terminal domain
PF13513   HEAT-like repeat

Gene Ontology

Mouse over links to read term descriptions.
GO:0005575   cellular_component  
GO:0003674   molecular_function  
GO:0008536   Ran GTPase binding  
GO:0008150   biological_process  
GO:0005737   cytoplasm  
GO:0005643   nuclear pore  
GO:0005634   nucleus  
GO:0005488   binding  
GO:0008565   protein transporter activity  
GO:0006886   intracellular protein transport  

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
10 1146 3w3z (A) 4 1087 19.00 0 1 1.06146 0.42
13 1146 3w3w (A) 6 1087 19.00 0 1 1.08185 0.29
380 533 3sl9 (A) 152 305 14.00 0 0.95 0.44193 -1.39
381 491 4jw3 (C) 16 103 30.00 0 1 0.254506 -0.44
396 495 3vwa (A) 437 534 18.00 0 1 0.483932 -1.63

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 60-80% 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_129093)

Species Accession Gene Product
Arabidopsis thaliana AT4G27640   ARM repeat superfamily protein
Candida albicans CaO19.2489   Ran-binding karyopherin
Candida albicans CaO19.10025   Ran-binding karyopherin
Dictyostelium discoideum DDB_G0270336   importin 4
Drosophila melanogaster Dmel_CG32165   CG32165 gene product from transcript CG32165-RC
Drosophila melanogaster Dmel_CG32164   CG32164 gene product from transcript CG32164-RB
Entamoeba histolytica EHI_097470   HEAT repeat domain containing protein
Homo sapiens ENSG00000196497   importin 4
Leishmania braziliensis LbrM.07.0800   hypothetical protein, conserved
Leishmania donovani LdBPK_070810.1   hypothetical protein, conserved
Leishmania infantum LinJ.07.0810   hypothetical protein, conserved
Leishmania major LmjF.07.0720   hypothetical protein, conserved
Leishmania mexicana LmxM.07.0720   hypothetical protein, conserved
Mus musculus ENSMUSG00000002319   importin 4
Neospora caninum NCLIV_031750   importin, putative
Oryza sativa 9269497   Os03g0261900
Saccharomyces cerevisiae YER110C   Kap123p
Trypanosoma brucei gambiense Tbg972.11.18350   hypothetical protein, conserved
Trypanosoma brucei Tb927.11.16340   Importin-beta N-terminal domain/HEAT-like repeat, putative
Trypanosoma congolense TcIL3000.11.16240   hypothetical protein, conserved
Trypanosoma congolense TcIL3000.11.16250   HEAT-like repeat, putative
Trypanosoma cruzi TcCLB.511529.9   Importin-beta N-terminal domain/HEAT-like repeat, putative
Trypanosoma cruzi TcCLB.504019.9   Importin-beta N-terminal domain/HEAT-like repeat, putative
Trypanosoma cruzi TcCLB.511031.49   Importin-beta N-terminal domain/HEAT-like repeat, putative
Trypanosoma cruzi TcCLB.511033.10   Importin-beta N-terminal domain/HEAT-like repeat, putative
Toxoplasma gondii TGME49_231600   HEAT repeat-containing protein

Essentiality

Tb927.11.16340 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
Tb11.01.8030 this record Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.01.8030 this record Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb11.01.8030 this record Trypanosoma brucei significant gain of fitness in procyclic forms alsford
Tb11.01.8030 this record Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
TGME49_231600 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
  • 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.
  • 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 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) 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 Tb927.11.16340 (Trypanosoma brucei), Importin-beta N-terminal domain/HEAT-like repeat, putative
Title for this comment
Comment