Detailed view for Rv0809

Basic information

TDR Targets ID: 6964
Mycobacterium tuberculosis, Probable phosphoribosylformylglycinamidine CYCLO-ligase PurM (AIRS) (phosphoribosyl-aminoimidazole synthetase) (air synthase)
Source Database / ID:  Tuberculist 

pI: 6.4107 | Length (AA): 364 | MW (Da): 38393 | Paralog Number: 1

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

PF00586   AIR synthase related protein, N-terminal domain
PF02769   AIR synthase related protein, C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0004641   phosphoribosylformylglycinamidine cyclo-ligase activity  
GO:0003824   catalytic 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
16 358 1cli (A) 6 345 46.00 0 1 1.47481 -0.32
27 358 3p4e (A) 18 346 44.00 0 1 1.44059 -0.68
64 359 2v9y (A) 483 780 44.00 0 1 1.33269 -0.59

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
Lower 20-40% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 0-20% 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_126894)

Species Accession Gene Product
Arabidopsis thaliana AT1G09830   phosphoribosylamine--glycine ligase
Arabidopsis thaliana AT3G55010   phosphoribosylformylglycinamidine cyclo-ligase
Candida albicans CaO19.12528   ADE5,7 bifunctional ligase
Candida albicans CaO19.5062   N terminus of ADE5,7 bifunctional ligase
Candida albicans CaO19.5061   purine biosynthesis
Caenorhabditis elegans CELE_F38B6.4   Protein F38B6.4
Dictyostelium discoideum DDB_G0290121   phosphoribosylamine-glycine ligase
Drosophila melanogaster Dmel_CG31628   adenosine 3
Escherichia coli b2499   phosphoribosylaminoimidazole synthetase
Escherichia coli b4005   phosphoribosylglycinamide synthetase phosphoribosylamine-glycine ligase
Homo sapiens ENSG00000159131   phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase
Mycobacterium leprae ML2205c   PROBABLE PHOSPHORIBOSYLFORMYLGLYCINAMIDINE CYCLO-LIGASE PURM (AIRS) (PHOSPHORIBOSYL-AMINOIMIDAZOLE SYNTHETASE) (AIR SYNTHASE)
Mycobacterium leprae ML2235c   PROBABLE PHOSPHORIBOSYLAMINE--GLYCINE LIGASE PURD (GARS) (GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE) (PHOSPHORIBOSYLGLYCINAMIDE SYNT
Mus musculus ENSMUSG00000022962   phosphoribosylglycinamide formyltransferase
Mycobacterium tuberculosis Rv0809   Probable phosphoribosylformylglycinamidine CYCLO-ligase PurM (AIRS) (phosphoribosyl-aminoimidazole synthetase) (air synthase)
Mycobacterium tuberculosis Rv0772   Probable phosphoribosylamine--glycine ligase PurD (GARS) (glycinamide ribonucleotide synthetase) (phosphoribosylglycinamide synt
Mycobacterium ulcerans MUL_0481   phosphoribosylamine--glycine ligase
Mycobacterium ulcerans MUL_0418   phosphoribosylaminoimidazole synthetase
Oryza sativa 4344854   Os08g0191200
Oryza sativa 4334671   Os03g0831500
Oryza sativa 4351721   Os12g0197100
Onchocerca volvulus OVOC1142  
Onchocerca volvulus OVOC12839  
Saccharomyces cerevisiae YGL234W   bifunctional aminoimidazole ribotide synthase/glycinamide ribotide synthase
Schmidtea mediterranea mk4.006776.02   Adenosine 3
Schmidtea mediterranea mk4.017493.02   Adenosine 3
Schmidtea mediterranea mk4.017150.01  
Schmidtea mediterranea mk4.007425.00   Trifunctional purine biosynthetic protein adenosine-3
Wolbachia endosymbiont of Brugia malayi Wbm0226   phosphoribosylaminoimidazole synthetase
Wolbachia endosymbiont of Brugia malayi Wbm0465   phosphoribosylamine--glycine ligase

Essentiality

Rv0809 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu825 this record Mycobacterium tuberculosis non-essential nmpdr
b2499 Escherichia coli non-essential goodall
b4005 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924

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): 0.3

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Species Known druggable target Linked compounds Reference
Homo sapiens phosphoribosylglycinamide formyltransferase, phosphoribosylglycinamide synthetase, phosphoribosylaminoimidazole synthetase Compounds References
Mus musculus phosphoribosylglycinamide formyltransferase Compounds References
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 Rv0809 (Mycobacterium tuberculosis), Probable phosphoribosylformylglycinamidine CYCLO-ligase PurM (AIRS) (phosphoribosyl-aminoimidazole synthetase) (air synthase)
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