Detailed view for Rv2503c

Basic information

TDR Targets ID: 9872
Mycobacterium tuberculosis, Probable succinyl-CoA:3-ketoacid-coenzyme A transferase (beta subunit) ScoB (3-oxo-acid:CoA transferase) (OXCT B) (succinyl CoA:
Source Database / ID:  Tuberculist 

pI: 5.0079 | Length (AA): 218 | MW (Da): 22898 | Paralog Number: 2

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

PF01144   Coenzyme A transferase

Gene Ontology

Mouse over links to read term descriptions.
GO:0008410   CoA-transferase activity  
GO:0008152   metabolic 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
1 214 1o9l (B) 282 510 52.00 0 1 1.28815 0.31
1 214 3dlx (D) 280 510 59.00 0 1 1.64515 -0.39
8 213 3rrl (B) 2 206 56.00 0 1 1.66385 -0.68

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. 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_127302)

Species Accession Gene Product
Candida albicans CaO19.2281   3-oxoacid CoA-transferase
Candida albicans CaO19.9821   3-oxoacid CoA-transferase
Caenorhabditis elegans CELE_C05C10.3   Protein C05C10.3
Dictyostelium discoideum DDB_G0288105   3-oxoacid CoA-transferase
Drosophila melanogaster Dmel_CG1140   Succinyl-CoA:3-ketoacid CoA transferase
Escherichia coli b1694   putative acetyl-CoA:acetoacetyl-CoA transferase: alpha subunit/beta subunit
Escherichia coli b2222   acetyl-CoA:acetoacetyl-CoA transferase, beta subunit
Escherichia coli b2221   acetyl-CoA:acetoacetyl-CoA transferase, alpha subunit
Homo sapiens ENSG00000083720   3-oxoacid CoA transferase 1
Homo sapiens ENSG00000198754   3-oxoacid CoA transferase 2
Leishmania braziliensis LbrM.30.1810   succinyl-coa:3-ketoacid-coenzyme a transferase- like protein
Leishmania braziliensis LbrM.33.2630   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative
Leishmania donovani LdBPK_332470.1   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative
Leishmania infantum LinJ.30.1910   succinyl-coa:3-ketoacid-coenzyme a transferase- like protein
Leishmania infantum LinJ.33.2470   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative
Leishmania infantum LinJ.30.1920   succinyl-coa:3-ketoacid-coenzyme a transferase- like protein
Leishmania major LmjF.30.1930   succinyl-coa:3-ketoacid-coenzyme a transferase- like protein
Leishmania major LmjF.33.2340   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative
Leishmania major LmjF.30.1940   succinyl-coa:3-ketoacid-coenzyme a transferase- like protein
Leishmania mexicana LmxM.29.1940   succinyl-coa:3-ketoacid-coenzyme a transferase- like protein
Leishmania mexicana LmxM.32.2340   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative
Leishmania mexicana LmxM.29.1930   succinyl-coa:3-ketoacid-coenzyme a transferase- like protein
Mus musculus ENSMUSG00000022186   3-oxoacid CoA transferase 1
Mus musculus ENSMUSG00000076436   3-oxoacid CoA transferase 2A
Mus musculus ENSMUSG00000076438   3-oxoacid CoA transferase 2B
Mycobacterium tuberculosis Rv3551   Possible CoA-transferase (alpha subunit)
Mycobacterium tuberculosis Rv2503c   Probable succinyl-CoA:3-ketoacid-coenzyme A transferase (beta subunit) ScoB (3-oxo-acid:CoA transferase) (OXCT B) (succinyl CoA:
Mycobacterium tuberculosis Rv2504c   Probable succinyl-CoA:3-ketoacid-coenzyme A transferase (alpha subunit) ScoA (3-oxo acid:CoA transferase) (OXCT A) (succinyl-CoA
Mycobacterium ulcerans MUL_4114   CoA-transferase subunit alpha
Mycobacterium ulcerans MUL_3781   succinyl-CoA:3-ketoacid-coenzyme a transferase (beta subunit) ScoB
Mycobacterium ulcerans MUL_3782   succinyl-CoA:3-ketoacid-coenzyme a transferase (alpha subunit) ScoA
Schmidtea mediterranea mk4.014458.01  
Schmidtea mediterranea mk4.003316.01  
Schmidtea mediterranea mk4.013488.00   Probable succinyl-CoA:3-ketoacid coenzyme A transferase, mitochondrial
Schmidtea mediterranea mk4.047668.00   Probable succinyl-CoA:3-ketoacid coenzyme A transferase, mitochondrial
Schmidtea mediterranea mk4.028415.00  
Schmidtea mediterranea mk4.013488.01  
Schmidtea mediterranea mk4.044417.01   Probable succinyl-CoA:3-ketoacid coenzyme A transferase, mitochondrial
Trypanosoma brucei gambiense Tbg972.11.2980   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative
Trypanosoma brucei Tb927.11.2690   Succinyl-CoA:3-ketoacid coenzyme A transferase, mitochondrial
Trypanosoma congolense TcIL3000_0_54130   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative
Trypanosoma congolense TcIL3000.11.2430   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative
Trypanosoma cruzi TcCLB.506301.50   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative
Trypanosoma cruzi TcCLB.504153.360   succinyl-coA:3-ketoacid-coenzyme A transferase, mitochondrial precursor, putative

Essentiality

Rv2503c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2546 this record Mycobacterium tuberculosis non-essential nmpdr
Tb11.02.0290 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb11.02.0290 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb11.02.0290 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb11.02.0290 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b1694 Escherichia coli non-essential goodall
b2221 Escherichia coli non-essential goodall
b2222 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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.
  • 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.

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 Succinyl Coenzyme A Transferase (2.8.3.5 ) 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

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Gene identifier Rv2503c (Mycobacterium tuberculosis), Probable succinyl-CoA:3-ketoacid-coenzyme A transferase (beta subunit) ScoB (3-oxo-acid:CoA transferase) (OXCT B) (succinyl CoA:
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