Detailed view for Rv2121c

Basic information

TDR Targets ID: 6218
Mycobacterium tuberculosis, ATP phosphoribosyltransferase HisG
Source Database / ID:  Tuberculist 

pI: 4.7127 | Length (AA): 284 | MW (Da): 30481 | 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

PF01634   ATP phosphoribosyltransferase
PF08029   HisG, C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0005737   cytoplasm  
GO:0003879   ATP phosphoribosyltransferase activity  
GO:0000287   magnesium ion binding  
GO:0000105   histidine biosynthetic 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
1 284 1nh8 (A) 1 284 99.99 0 1 2.153 -0.8

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:

PDB tag
  • 1NH7:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 1NH8:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 5LHT:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 5LHU:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
PDB tag
  • 5U99:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

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
  • 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_129102)

Species Accession Gene Product
Arabidopsis thaliana AT1G58080   ATP phosphoribosyl transferase 1
Arabidopsis thaliana AT1G09795   ATP phosphoribosyl transferase 2
Candida albicans CaO19.4026   ATP phosphoribosyltransferase
Candida albicans CaO19.11509   ATP phosphoribosyltransferase
Escherichia coli b2019   ATP phosphoribosyltransferase
Mycobacterium leprae ML1310   Probable ATP phosphoribosyltransferase HisG
Mycobacterium tuberculosis Rv2121c   ATP phosphoribosyltransferase HisG
Mycobacterium ulcerans MUL_2352   ATP phosphoribosyltransferase
Oryza sativa 4331530   Os03g0134300
Saccharomyces cerevisiae YER055C   ATP phosphoribosyltransferase

Essentiality

Rv2121c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2154 this record Mycobacterium tuberculosis essential nmpdr
b2019 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs

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): 0.2

Known modulators for this target

Compound Source Reference
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References
ChEMBL23 References

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

Ranking Plot

Putative Drugs List

Compound Raw Global Species
0.0419 1 1
0.0424 0.5559 1
0.0356 1 1
0.0299 0.294 1
0.0352 0.3459 1
0.036 0.2608 1
0.0346 1 1
0.0369 0.2588 1
0.0424 0.9104 0.5
0.0342 0.4074 1
0.0424 0.7879 0.7821
0.026 1 1
0.0348 1 1
0.0371 0.2928 1
0.0207 0.4763 1
0.0368 0.3931 1
0.0207 0.4763 1

Assayability

Assay information

  • ChEMBL
  • Inhibition of Mycobacterium tuberculosis HisG assessed as phosphoribosyl ATP production at 10 uM by spectrophotometry
  • ChEMBL
  • Inhibition of Mycobacterium tuberculosis HisG assessed as phosphoribosyl ATP production by spectrophotometry
  • ChEMBL
  • Inhibition of Mycobacterium tuberculosis HisG assessed as phosphoribosyl ATP production at 1 uM by spectrophotometry

Reagent availability

  • Reagent:
  • Target Type Source Notes
    Rv2121c cloned gene BRENDA A gene with this EC number or name or sequence has been cloned from Mycobacterium tuberculosis ( 1 )

Bibliographic References

3 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 Rv2121c (Mycobacterium tuberculosis), ATP phosphoribosyltransferase HisG
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