Detailed view for Rv1131

Basic information

TDR Targets ID: 6162
Mycobacterium tuberculosis, Probable methylcitrate synthase PrpC

Source Database / ID:  Tuberculist 

pI: 8.4604 | Length (AA): 393 | MW (Da): 42969 | 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

PF00285   Citrate synthase, C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0046912   transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer  
GO:0005737   cytoplasm  
GO:0044262   cellular carbohydrate metabolic process  
GO:0006099   tricarboxylic acid cycle  

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
27 392 3hwk (A) 27 392 99.99 0 1 2.1674 -1.44

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:

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


Upregulation Percent Ranking Stage Dataset
Upper 80-100% 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.


Ortholog group members (OG5_128590)

Species Accession Gene Product
Arabidopsis thaliana AT3G58740   citrate synthase 1
Arabidopsis thaliana AT2G42790   citrate synthase 3
Arabidopsis thaliana AT3G58750   citrate synthase 2
Dictyostelium discoideum DDB_G0276965   citrate synthase
Dictyostelium discoideum DDB_G0287281   citrate synthase
Dictyostelium discoideum DDB_G0267426   citrate synthase
Drosophila melanogaster Dmel_CG14740   CG14740 gene product from transcript CG14740-RA
Escherichia coli b0720   citrate synthase
Escherichia coli b0333   2-methylcitrate synthase
Mycobacterium leprae ML2130c   PROBABLE CITRATE SYNTHASE I GLTA2
Mycobacterium tuberculosis Rv1131   Probable methylcitrate synthase PrpC
Mycobacterium tuberculosis Rv0896   Probable citrate synthase I GltA2
Mycobacterium ulcerans MUL_0255   type II citrate synthase
Mycobacterium ulcerans MUL_2494   citrate synthase
Neospora caninum NCLIV_024780   citrate synthase, putative
Neospora caninum NCLIV_021820   Citrate synthase (EC, related
Oryza sativa 4328812   Os02g0232400
Plasmodium vivax PVX_211290   unspecified product
Plasmodium vivax PVX_226290   unspecified product
Schmidtea mediterranea mk4.054382.01  
Schmidtea mediterranea mk4.046581.00  
Toxoplasma gondii TGME49_203110   citrate synthase, putative
Toxoplasma gondii TGME49_263130   citrate synthase, putative
Wolbachia endosymbiont of Brugia malayi Wbm0735   citrate synthase


Rv1131 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1151 this record Mycobacterium tuberculosis non-essential nmpdr
b0333 Escherichia coli non-essential goodall
b0720 Escherichia coli non-essential goodall
TGME49_203110 Toxoplasma gondii Probably non-essential sidik
TGME49_263130 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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.
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site,, release WS170
  • 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
  • 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.

Phenotypes and Validation (curated)

Annotated phenotypes:

Affected Entity Phenotypic quality Occurs in Occurs at Evidence Observed in Drugs/Inhibitors
growth (GO:0040007) decreased (PATO:0000468) inferred from in vitro culture assay (ECO:0000182) Mycobacterium tuberculosis No drug identifiers listed for this gene.
Annotator: Comment: 2007-12-12. References: 16689789

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

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


Assay information

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

Reagent availability

No reagent availability information for this target.

Bibliographic References

1 literature reference was collected for this gene.

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

User comments

2009-08-28 20:56:05 user Wes Van Voorhis added Solved structure

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Gene identifier Rv1131 (Mycobacterium tuberculosis), Probable methylcitrate synthase PrpC
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