Detailed view for Rv3275c

Basic information

TDR Targets ID: 6959
Mycobacterium tuberculosis, Probable phosphoribosylaminoimidazole carboxylase catalytic subunit PurE (air carboxylase) (AIRC)

Source Database / ID:  Tuberculist 

pI: 5.7348 | Length (AA): 174 | MW (Da): 17675 | Paralog Number: 1

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

PF00731   AIR carboxylase

Gene Ontology

Mouse over links to read term descriptions.
GO:0034023   5-(carboxyamino)imidazole ribonucleotide mutase activity  
GO:0004638   phosphoribosylaminoimidazole carboxylase activity  
GO:0006189   'de novo' IMP biosynthetic process  

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
6 169 3lp6 (A) 6 169 99.00 0 1 2.13193 -1.07
8 152 4grd (A) 14 160 61.00 0 1 1.65373 -1.28
9 157 1qcz (A) 9 159 54.00 0 1 1.57372 -0.95

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:

  • 3LP6:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 0-20% 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_127668)

Species Accession Gene Product
Arabidopsis thaliana AT2G37690   putative phosphoribosylaminoimidazole carboxylase / AIR carboxylase
Candida albicans CaO19.5906   AIR carboxylase
Candida albicans CaO19.13327   AIR carboxylase
Dictyostelium discoideum DDB_G0283987   phosphoribosylaminoimidazole carboxylase
Escherichia coli b0523   N5-carboxyaminoimidazole ribonucleotide mutase
Escherichia coli b0522   N5-carboxyaminoimidazole ribonucleotide synthase
Mycobacterium leprae ML0736   Probable phosphoribosylaminoimidazole carboxylase catalytic subunit PurE (AIR CARBOXYLASE) (AIRC)
Mycobacterium leprae ML0735   Probable phosphoribosylaminoimidazole carboxylase ATPase subunit PurK (AIR CARBOXYLASE) (AIRC)
Mycobacterium tuberculosis Rv3275c   Probable phosphoribosylaminoimidazole carboxylase catalytic subunit PurE (air carboxylase) (AIRC)
Mycobacterium tuberculosis Rv3276c   Probable phosphoribosylaminoimidazole carboxylase ATPase subunit PurK (air carboxylase) (AIRC)
Mycobacterium ulcerans MUL_2628   phosphoribosylaminoimidazole carboxylase ATPase subunit
Mycobacterium ulcerans MUL_2627   phosphoribosylaminoimidazole carboxylase catalytic subunit PurE
Oryza sativa 4327345   Os01g0199900
Saccharomyces cerevisiae YOR128C   phosphoribosylaminoimidazole carboxylase ADE2
Schmidtea mediterranea mk4.035919.00  
Schmidtea mediterranea mk4.035919.01  
Wolbachia endosymbiont of Brugia malayi Wbm0041   phosphoribosylaminoimidazole carboxylase (NCAIR synthetase)
Wolbachia endosymbiont of Brugia malayi Wbm0397   phosphoribosylcarboxyaminoimidazole (NCAIR) mutase, PurE

Essentiality

Rv3275c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3334 this record Mycobacterium tuberculosis essential nmpdr
b0522 Escherichia coli non-essential goodall
b0523 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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.
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.

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 Rv3275c (Mycobacterium tuberculosis), Probable phosphoribosylaminoimidazole carboxylase catalytic subunit PurE (air carboxylase) (AIRC)
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