Detailed view for Rv3380c

Basic information

TDR Targets ID: 9096
Mycobacterium tuberculosis, Probable transposase
Source Database / ID:  Tuberculist 

pI: 9.6374 | Length (AA): 328 | MW (Da): 36894 | Paralog Number: 15

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

PF00665   Integrase core domain
PF13276   HTH-like domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0032196   transposition  
GO:0003677   DNA binding  
GO:0003676   nucleic acid binding  
GO:0015074   DNA integration  

Metabolic Pathways

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

Structural information

Modbase 3D models:

No model available for this protein in Modbase.

PDB Structures:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Dormant phase. murphy
Show/Hide expression data references
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.

Orthologs

Ortholog group members (OG5_128670)

Species Accession Gene Product
Escherichia coli b3558   IS150 transposase B
Mycobacterium tuberculosis Rv2279   Probable transposase
Mycobacterium tuberculosis Rv3185   Probable transposase
Mycobacterium tuberculosis Rv3187   Probable transposase
Mycobacterium tuberculosis Rv2355   Probable transposase
Mycobacterium tuberculosis Rv2814c   Probable transposase
Mycobacterium tuberculosis Rv3326   Probable transposase
Mycobacterium tuberculosis Rv2479c   Probable transposase
Mycobacterium tuberculosis Rv3380c   Probable transposase
Mycobacterium tuberculosis Rv0796   Putative transposase for insertion sequence element IS6110
Mycobacterium tuberculosis Rv2106   Probable transposase
Mycobacterium tuberculosis Rv1756c   Putative transposase
Mycobacterium tuberculosis Rv3475   Possible transposase for insertion element IS6110 [second part]
Mycobacterium tuberculosis Rv2167c   Probable transposase
Mycobacterium tuberculosis Rv1764   Putative transposase
Mycobacterium tuberculosis Rv2649   Probable transposase for insertion sequence element IS6110
Mycobacterium tuberculosis Rv1369c   Probable transposase

Essentiality

Rv3380c has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b3558 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

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

No literature references available for this target.

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User comments

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Gene identifier Rv3380c (Mycobacterium tuberculosis), Probable transposase
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