Detailed view for Rv1655

Basic information

TDR Targets ID: 5672
Mycobacterium tuberculosis, Probable acetylornithine aminotransferase ArgD
Source Database / ID:  Tuberculist 

pI: 6.4988 | Length (AA): 400 | MW (Da): 40910 | Paralog Number: 0

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

PF00202   Aminotransferase class-III

Gene Ontology

Mouse over links to read term descriptions.
GO:0030170   pyridoxal phosphate binding  
GO:0008483   transaminase activity  
GO:0003824   catalytic activity  
GO:0006525   arginine 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
1 400 3hmu (A) 8 454 27.00 0 1 1.1694 0.56
10 393 1vef (A) 11 394 44.00 0 1 1.5194 -0.37
11 392 3q8n (A) 30 444 40.00 0 1 1.3166 0.38

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. murphy
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Dormant phase. hasan
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_126982)

Species Accession Gene Product
Arabidopsis thaliana AT1G80600   acetylornithine aminotransferase
Arabidopsis thaliana AT5G46180   ornithine-delta-aminotransferase
Candida albicans CaO19.11254   Acetylornithine aminotransferase
Candida albicans CaO19.5641   Ornithine aminotransferase
Candida albicans CaO19.13086   Ornithine aminotransferase
Candida albicans CaO19.3770   corresponds to N-terminus of S. cerevisiae ARG8 and allelic CaP19.11254
Candida albicans CaO19.3771   Acetylornithine aminotransferase
Caenorhabditis elegans CELE_C16A3.10   Protein C16A3.10, isoform C
Dictyostelium discoideum DDB_G0287913   ornithine 5-aminotransferase
Dictyostelium discoideum DDB_G0269526   acetylornithine 5-aminotransferase
Drosophila melanogaster Dmel_CG8782   Ornithine aminotransferase precursor
Escherichia coli b1748   succinylornithine transaminase, PLP-dependent
Escherichia coli b3359   bifunctional acetylornithine aminotransferase/succinyldiaminopimelate aminotransferase
Echinococcus granulosus EgrG_001032250   Aminotransferase class III
Echinococcus granulosus EgrG_001032200   ornithine aminotransferase
Echinococcus multilocularis EmuJ_001032250   Aminotransferase class III
Echinococcus multilocularis EmuJ_001032200   ornithine aminotransferase
Echinococcus multilocularis EmuJ_000015700   ornithine aminotransferase
Homo sapiens ENSG00000065154   ornithine aminotransferase
Mycobacterium leprae ML1409   Probable Acetylornithine aminotransferase ArgD
Mus musculus ENSMUSG00000030934   ornithine aminotransferase
Mycobacterium tuberculosis Rv1655   Probable acetylornithine aminotransferase ArgD
Mycobacterium ulcerans MUL_1243   ornithine aminotransferase RocD1 and RocD2
Mycobacterium ulcerans MUL_1647   acetylornithine aminotransferase
Neospora caninum NCLIV_037280   ornithine aminotransferase, putative
Oryza sativa 4333554   Os03g0643300
Oryza sativa 4337697   Os05g0129100
Plasmodium berghei PBANKA_0107400   ornithine aminotransferase, putative
Plasmodium falciparum PF3D7_0608800   ornithine aminotransferase
Plasmodium knowlesi PKNH_1141400   ornithine aminotransferase, putative
Plasmodium vivax PVX_113600   ornithine aminotransferase, putative
Plasmodium yoelii PY00104   ornithine aminotransferase
Saccharomyces cerevisiae YOL140W   acetylornithine transaminase
Saccharomyces cerevisiae YLR438W   ornithine-oxo-acid transaminase
Schistosoma japonicum Sjp_0302240   ko:K00819 ornithine--oxo-acid transaminase [EC2.6.1.13], putative
Schistosoma mansoni Smp_000660   ornithine--oxo-acid transaminase
Schmidtea mediterranea mk4.045935.00  
Schmidtea mediterranea mk4.029046.00  
Schmidtea mediterranea mk4.024830.00  
Schmidtea mediterranea mk4.009106.02  
Schmidtea mediterranea mk4.065769.01  
Schmidtea mediterranea mk4.058932.01  
Schmidtea mediterranea mk4.024830.01  
Schmidtea mediterranea mk4.007450.00  
Toxoplasma gondii TGME49_269110   ornithine aminotransferase, mitochondrial precursor, putative
Wolbachia endosymbiont of Brugia malayi Wbm0129   acetylornithine transaminase protein

Essentiality

Rv1655 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1684 this record Mycobacterium tuberculosis essential nmpdr
b1748 Escherichia coli non-essential goodall
b3359 Escherichia coli non-essential goodall
PBANKA_0107400 Plasmodium berghei Dispensable plasmo
TGME49_269110 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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.
  • 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
  • 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.
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource

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
Homo sapiens ornithine aminotransferase Compounds References
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets
Obtained from network model

Ranking Plot

No enough druggable targets predicted through repurposing network model to make a plot

Putative Drugs List

Compound Raw Global Species
0.0054 1 1

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 Rv1655 (Mycobacterium tuberculosis), Probable acetylornithine aminotransferase ArgD
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