Detailed view for Rv2993c

Basic information

TDR Targets ID: 8878
Mycobacterium tuberculosis, Possible 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (HHDD isomerase)
Source Database / ID:  Tuberculist 

pI: 5.2546 | Length (AA): 239 | MW (Da): 25341 | 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

PF01557   Fumarylacetoacetate (FAA) hydrolase family
PF10370   Domain of unknown function (DUF2437)

Gene Ontology

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

Metabolic Pathways

Tyrosine metabolism (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
1 238 3qdf (A) 27 264 95.00 0 1 2.09882 -1.09
2 236 3rr6 (A) 28 259 81.00 0 1 1.96796 -1.13

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 60-80% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Dormant phase. 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_126763)

Species Accession Gene Product
Arabidopsis thaliana AT4G15940   fumarylacetoacetate hydrolase-like protein
Brugia malayi Bm1_36665   fumarylacetoacetate hydrolase domain containing 1, putative
Candida albicans CaO19.9730   one of two fumarylacetoacetate hydrolase family genes
Candida albicans CaO19.2184   one of two fumarylacetoacetate hydrolase family genes
Candida albicans CaO19.7244   one of two fumarylacetoacetate hydrolase family genes
Caenorhabditis elegans CELE_ZK688.3   Protein FAHD-1
Dictyostelium discoideum DDB_G0275071   Fumarylacetoacetate hydrolase domain-containing protein
Dictyostelium discoideum DDB_G0293650   Fumarylacetoacetate hydrolase domain-containing protein
Drosophila melanogaster Dmel_CG6028   CG6028 gene product from transcript CG6028-RA
Drosophila melanogaster Dmel_CG5793   CG5793 gene product from transcript CG5793-RE
Escherichia coli b1180   putative isomerase/hydrolase
Homo sapiens ENSG00000180185   fumarylacetoacetate hydrolase domain containing 1
Homo sapiens ENSG00000115042   fumarylacetoacetate hydrolase domain containing 2A
Homo sapiens ENSG00000144199   fumarylacetoacetate hydrolase domain containing 2B
Leishmania braziliensis LbrM.34.2390   hypothetical protein, conserved
Leishmania donovani LdBPK_352490.1   Fumarylacetoacetate (FAA) hydrolase family, putative
Leishmania infantum LinJ.35.2490   hypothetical protein, conserved
Leishmania major LmjF.35.2440   hypothetical protein, conserved
Leishmania mexicana LmxM.34.2440   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_09728   fumarylacetoacetate hydrolase domain containing 1
Mycobacterium leprae ML1689c   POSSIBLE 2-HYDROXYHEPTA-2,4-DIENE-1,7-DIOATE ISOMERASE (HHDD ISOMERASE)
Mus musculus ENSMUSG00000045316   fumarylacetoacetate hydrolase domain containing 1
Mus musculus ENSMUSG00000027371   fumarylacetoacetate hydrolase domain containing 2A
Mycobacterium tuberculosis Rv2993c   Possible 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (HHDD isomerase)
Mycobacterium ulcerans MUL_1956   2-hydroxyhepta-2,4-diene-1,7-dioate isomerase
Oryza sativa 4334655   Os03g0829000
Oryza sativa 9266575   Os03g0421700
Oryza sativa 4333132   Os03g0421500
Saccharomyces cerevisiae YNL168C   Fmp41p
Schistosoma japonicum Sjp_0002630   ko:K01826 5-carboxymethyl-2-hydroxymuconate isomerase [EC5.3.3.10], putative
Schistosoma mansoni Smp_175750   fumarylacetoacetate hydrolase
Schmidtea mediterranea mk4.004541.01   Fumarylacetoacetate hydrolase, putative
Schmidtea mediterranea mk4.007878.00   Fumarylacetoacetate hydrolase, putative
Trypanosoma cruzi TcCLB.510749.10   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.510657.50   hypothetical protein, conserved

Essentiality

Rv2993c has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b1180 Escherichia coli non-essential goodall
CELE_ZK688.3 Caenorhabditis elegans embryonic lethal wormbase
CELE_ZK688.3 Caenorhabditis elegans larval arrest wormbase
Show/Hide essentiality data references
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

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

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

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

1 literature reference was collected for this gene.

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Gene identifier Rv2993c (Mycobacterium tuberculosis), Possible 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase (HHDD isomerase)
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