Detailed view for Rv1879

Basic information

TDR Targets ID: 8195
Mycobacterium tuberculosis, Conserved hypothetical protein

Source Database / ID:  Tuberculist 

pI: 6.6176 | Length (AA): 378 | MW (Da): 41865 | Paralog Number: 4

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

PF04909   Amidohydrolase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016787   hydrolase activity  
GO:0003824   catalytic activity  
GO:0008152   metabolic process  

Metabolic Pathways

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

Structural information

Modbase 3D models:

There are 2 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
2 378 2q01 (A) 19 473 12.00 0.000000032 1 0.932755 0.51
7 378 2qpx (A) 2 372 27.00 0 1 1.33863 -0.65

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
Upper 80-100% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Mid 40-60% 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_127086)

Species Accession Gene Product
Arabidopsis thaliana AT3G53180   nodulin/glutamine synthase-like protein
Cryptosporidium hominis Chro.60524   glutamine synthetase
Cryptosporidium parvum cgd6_4570   glutamate synthetase, possible bacterial origin, beta-grasp+glutamate synthase catalytic domain
Dictyostelium discoideum DDB_G0295755   glutamine synthetase type I
Dictyostelium discoideum DDB_G0280191   amidohydrolase 2 family protein
Dictyostelium discoideum DDB_G0276835   glutamate-ammonia ligase
Escherichia coli b3870   glutamine synthetase
Escherichia coli b1297   glutamate--putrescine ligase
Homo sapiens ENSG00000146166   lengsin, lens protein with glutamine synthetase domain
Mycobacterium leprae ML1631c   PROBABLE GLUTAMINE SYNTHETASE GLNA2 (GLUTAMINE SYNTHASE) (GS-II)
Mycobacterium leprae ML0925   GLUTAMINE SYNTHETASE GLNA1 (GLUTAMINE SYNTHASE) (Glutamate--ammonia ligase 1) (GS-I)
Mus musculus ENSMUSG00000050217   lengsin, lens protein with glutamine synthetase domain
Mycobacterium tuberculosis Rv1879   Conserved hypothetical protein
Mycobacterium tuberculosis Rv2222c   Probable glutamine synthetase GlnA2 (glutamine synthase) (GS-II)
Mycobacterium tuberculosis Rv1878   Probable glutamine synthetase GlnA3 (glutamine synthase) (GS-I)
Mycobacterium tuberculosis Rv2220   Glutamine synthetase GlnA1 (glutamine synthase) (GS-I)
Mycobacterium tuberculosis Rv2860c   Probable glutamine synthetase GlnA4 (glutamine synthase) (GS-II)
Mycobacterium ulcerans MUL_2988   hypothetical protein
Mycobacterium ulcerans MUL_1335   glutamine synthetase
Mycobacterium ulcerans MUL_1340   glutamine synthetase GlnA1
Neospora caninum NCLIV_034160   Glutamine synthetase (EC 6.3.1.2), related
Oryza sativa 4348794   Os10g0456500
Plasmodium berghei PBANKA_0823500   glutamine synthetase, putative
Plasmodium falciparum PF3D7_0922600   glutamine synthetase, putative
Plasmodium knowlesi PKNH_0720600   glutamine synthetase, putative
Plasmodium vivax PVX_099540   glutamine synthetase, putative
Plasmodium yoelii PY04688   glutamine synthetase, putative
Schistosoma japonicum Sjp_0096930   Glutamine synthetase, putative
Schistosoma japonicum Sjp_0318030   expressed protein
Schistosoma japonicum Sjp_0217840   ko:K01915 glutamine synthetase [EC6.3.1.2], putative
Schistosoma mansoni Smp_133770   glutamine synthetase bacteria
Schistosoma mansoni Smp_021460   glutamine synthetase bacteria
Schmidtea mediterranea mk4.012966.02   Lengsin
Schmidtea mediterranea mk4.006404.02   Lengsin
Schmidtea mediterranea mk4.000871.05   Lengsin
Schmidtea mediterranea mk4.024807.00   Lengsin
Schmidtea mediterranea mk4.006224.04   Lengsin
Schmidtea mediterranea mk4.000871.04   Lengsin
Schmidtea mediterranea mk4.023608.00   Lengsin
Toxoplasma gondii TGME49_273490   glutamine synthetase, type I, putative
Wolbachia endosymbiont of Brugia malayi Wbm0275   glutamine synthetase

Essentiality

Rv1879 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1908 Mycobacterium tuberculosis non-essential nmpdr
mtu1909 this record Mycobacterium tuberculosis non-essential nmpdr
b1297 Escherichia coli non-essential goodall
b3870 Escherichia coli non-essential goodall
PBANKA_0823500 Plasmodium berghei Dispensable plasmo
TGME49_273490 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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

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
Mycobacterium tuberculosis Probable glutamine synthetase GlnA3 (glutamine synthase) (GS-I) Compounds References
Mycobacterium tuberculosis Probable glutamine synthetase GlnA2 (glutamine synthase) (GS-II) Compounds References
Escherichia coli glutamine synthetase Compounds References
Mycobacterium leprae PROBABLE GLUTAMINE SYNTHETASE GLNA2 (GLUTAMINE SYNTHASE) (GS-II) Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets

Obtained from network model

Ranking Plot


Putative Drugs List


Compound Raw Global Species
0.047 0.4531 0.4527
0.0318 0.438 0
0.0424 0.5046 0.5036
0.0474 0.2736 0
0.0327 0.4082 0.4221
0.0262 0.2821 0.4152
0.0242 0.3027 0.3987
0.027 0.3036 0.4534
0.0327 0.4082 0.4221
0.0319 0.4 0
0.0176 0.2863 0.2702
0.0214 0.4973 0.4947
0.0333 0.4013 0
0.0327 0.4082 0.4221
0.0327 0.4082 0.4221

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 Rv1879 (Mycobacterium tuberculosis), Conserved hypothetical protein
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