Detailed view for Rv2395

Basic information

TDR Targets ID: 8515
Mycobacterium tuberculosis, Probable conserved integral membrane protein
Source Database / ID:  Tuberculist 

pI: 9.9335 | Length (AA): 667 | MW (Da): 68252 | Paralog Number: 0

Signal peptide: N | GPI Anchor: | Predicted trans-membrane segments: 18

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

PF03169   OPT oligopeptide transporter protein

Gene Ontology

Mouse over links to read term descriptions.
GO:0055085   transmembrane transport  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 3 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
147 289 2cu0 (A) 229 366 31.00 0.37 0.73 0.363193 0.84
253 551 3zux (A) 13 300 18.00 0 0.31 0.596576 -0.24
299 468 5iws (A) 33 197 32.00 0.3 0.54 0.372673 0.76

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
Mid 40-60% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Dormant phase. murphy
Show/Hide expression data references
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.

Orthologs

Ortholog group members (OG5_129625)

Species Accession Gene Product
Arabidopsis thaliana AT3G27020   putative metal-nicotianamine transporter YSL6
Arabidopsis thaliana AT1G48370   metal-nicotianamine transporter YSL8
Arabidopsis thaliana AT5G53550   metal-nicotianamine transporter YSL3
Arabidopsis thaliana AT3G17650   putative metal-nicotianamine transporter YSL5
Arabidopsis thaliana AT1G65730   putative metal-nicotianamine transporter YSL7
Arabidopsis thaliana AT5G41000   putative metal-nicotianamine transporter YSL4
Arabidopsis thaliana AT5G24380   metal-nicotianamine transporter YSL2
Arabidopsis thaliana AT4G24120   metal-nicotianamine transporter YSL1
Candida albicans CaO19.5770   potential OPT family transporter similar to S. cerevisiae YGL114W
Candida albicans CaO19.13192   potential OPT family transporter similar to S. cerevisiae YGL114W
Dictyostelium discoideum DDB_G0291554   hypothetical protein
Mycobacterium tuberculosis Rv2395   Probable conserved integral membrane protein
Oryza sativa 4335676   Os04g0390500
Oryza sativa 4327424   Os01g0829900
Oryza sativa 4336441   Os04g0524500
Oryza sativa 4328078   Os02g0116400
Oryza sativa 9267947   Os02g0633300
Oryza sativa 4328077   Os02g0116300
Oryza sativa 4330161   Os02g0649900
Oryza sativa 4345163   Os08g0280300
Oryza sativa 4335677   Os04g0390600
Oryza sativa 4336445   Os04g0524900
Oryza sativa 4336545   Os04g0542200
Oryza sativa 4326360   Os01g0238700
Oryza sativa 4337382   Os04g0674600
Oryza sativa 4336546   Os04g0542800
Oryza sativa 9268232   Os02g0650300
Oryza sativa 4336442   Os04g0524600
Saccharomyces cerevisiae YGL114W   hypothetical protein

Essentiality

Rv2395 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2436 this record Mycobacterium tuberculosis non-essential nmpdr
Show/Hide essentiality data references
  • 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
  • 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
  • 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
  • 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.
  • 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
  • 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.

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

Druggability index (range: 0 to 1): 0.1

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.

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

User comments

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Gene identifier Rv2395 (Mycobacterium tuberculosis), Probable conserved integral membrane protein
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