Detailed view for Rv3068c

Basic information

TDR Targets ID: 6772
Mycobacterium tuberculosis, Probable phosphoglucomutase PgmA (glucose phosphomutase) (PGM)
Source Database / ID:  Tuberculist 

pI: 5.7184 | Length (AA): 547 | MW (Da): 58266 | Paralog Number: 0

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

PF00408   Phosphoglucomutase/phosphomannomutase, C-terminal domain
PF02878   Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I
PF02879   Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II
PF02880   Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain III

Gene Ontology

Mouse over links to read term descriptions.
GO:0071704   GO:organic substance metabolic process  

GO:0016868   intramolecular transferase activity, phosphotransferases  
GO:0004614   phosphoglucomutase activity  
GO:0000287   magnesium ion binding  
GO:0005975   carbohydrate metabolic process  

Structural information

Modbase 3D models:

There is 1 model calculated for this protein. More info on this model, including the model itself is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
2 546 3na5 (A) 2 543 57.00 0 1 1.75574 -1.1

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, Dormant phase. hasan 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_127226)

Species Accession Gene Product
Arabidopsis thaliana AT5G51820   phosphoglucomutase
Arabidopsis thaliana AT1G23190   phosphoglucomutase 3
Arabidopsis thaliana AT1G70730   phosphoglucomutase 2
Brugia malayi Bm1_15740   phosphoglucomutase
Candida albicans CaO19.10359   Phosphoglucomutase
Candida albicans CaO19.2841   Phosphoglucomutase
Caenorhabditis elegans CELE_R05F9.6   Protein R05F9.6
Cryptosporidium hominis Chro.20343   hypothetical protein
Cryptosporidium parvum cgd2_3270   phosphoglucomutase, tandemly duplicated gene
Cryptosporidium parvum cgd2_3260   phosphoglucomutase, tandemly duplicated gene
Dictyostelium discoideum DDB_G0288483   phosphoglucomutase A
Drosophila melanogaster Dmel_CG5165   phosphoglucose mutase
Escherichia coli b0688   phosphoglucomutase
Echinococcus granulosus EgrG_000943900   phosphoglucomutase
Echinococcus granulosus EgrG_000944000   ribonuclease H1
Entamoeba histolytica EHI_110120   phosphoglucomutase, putative
Echinococcus multilocularis EmuJ_000943900   phosphoglucomutase
Echinococcus multilocularis EmuJ_000944000   ribonuclease H1
Homo sapiens ENSG00000079739   phosphoglucomutase 1
Homo sapiens ENSG00000154330   phosphoglucomutase 5
Leishmania braziliensis LbrM.21.0700   phosphoglucomutase, putative
Leishmania donovani LdBPK_210700.1   phosphoglucomutase, putative
Leishmania infantum LinJ.21.0700   phosphoglucomutase, putative
Leishmania major LmjF.21.0640   phosphoglucomutase, putative
Leishmania mexicana LmxM.21.0640   phosphoglucomutase, putative
Loa Loa (eye worm) LOAG_02183   phosphoglucomutase
Mus musculus 226041   phosphoglucomutase 5
Mus musculus ENSMUSG00000025791   phosphoglucomutase 2
Mycobacterium tuberculosis Rv3068c   Probable phosphoglucomutase PgmA (glucose phosphomutase) (PGM)
Mycobacterium ulcerans MUL_3442   phosphoglucomutase
Neospora caninum NCLIV_014450   Phosphoglucomutase 2, related
Oryza sativa 4348230   Os10g0189100
Oryza sativa 4333895   Os03g0712700
Onchocerca volvulus OVOC11014   Phosphoglucomutase homolog
Saccharomyces cerevisiae YKL127W   phosphoglucomutase PGM1
Saccharomyces cerevisiae YMR105C   phosphoglucomutase PGM2
Schistosoma japonicum Sjp_0218890   Phosphoglucomutase-1, putative
Schistosoma japonicum Sjp_0073670   ko:K01835 phosphoglucomutase [EC5.4.2.2], putative
Schistosoma japonicum Sjp_0310820   ko:K03469 ribonuclease HI [EC3.1.26.4A], putative
Schistosoma mansoni Smp_180530.2   phosphoglucomutase
Schistosoma mansoni Smp_180530.5   phosphoglucomutase
Schistosoma mansoni Smp_180530.3   phosphoglucomutase
Schistosoma mansoni Smp_180530.1   phosphoglucomutase
Schistosoma mansoni Smp_180530.4   phosphoglucomutase
Schmidtea mediterranea mk4.003988.03   Phosphoglucomutase, putative
Schmidtea mediterranea mk4.004018.00   Phosphoglucomutase
Schmidtea mediterranea mk4.004018.01   Phosphoglucomutase, putative
Trypanosoma cruzi TcCLB.511911.130   phosphoglucomutase
Trypanosoma cruzi TcCLB.508637.90   phosphoglucomutase
Toxoplasma gondii TGME49_285980   glucosephosphate-mutase GPM1

Essentiality

Rv3068c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3121 this record Mycobacterium tuberculosis non-essential nmpdr
CELE_R05F9.6 Caenorhabditis elegans embryonic lethal wormbase
TGME49_285980 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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
  • 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
  • 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.
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database

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

  • Assay for Phosphoglucomutase (5.4.2.2 ) Sigma-Aldrich
  • Automatic link to known assays based on EC numbers.

Reagent availability

No reagent availability information for this target.

Bibliographic References

9 literature references were collected for this gene.

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

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Gene identifier Rv3068c (Mycobacterium tuberculosis), Probable phosphoglucomutase PgmA (glucose phosphomutase) (PGM)
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