Detailed view for Rv0480c

Basic information

TDR Targets ID: 7392
Mycobacterium tuberculosis, Possible amidohydrolase
Source Database / ID:  Tuberculist 

pI: 6.7107 | Length (AA): 280 | MW (Da): 28995 | 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

PF00795   Carbon-nitrogen hydrolase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016810   hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds  
GO:0006807   nitrogen compound metabolic process  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 4 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
1 277 2w1v (A) 42 312 31.00 0 1 1.41279 -0.79
1 280 1uf5 (A) 4 298 25.00 0 1 1.1565 -0.02
1 264 5jqn (A) 1 258 34.00 0 1 1.19786 0.18
1 271 2e11 (A) 4 263 32.00 0 1 1.34486 -0.54

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
Lower 20-40% 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.

Orthologs

Ortholog group members (OG5_126651)

Species Accession Gene Product
Arabidopsis thaliana AT2G27450   N-carbamoylputrescine amidase
Arabidopsis thaliana AT4G08790   Nitrilase/cyanide hydratase and apolipoprotein N-acyltransferase family protein
Arabidopsis thaliana AT5G12040   Nitrilase/cyanide hydratase and apolipoprotein N-acyltransferase family protein
Brugia malayi Bm1_39300   hydrolase, carbon-nitrogen family protein
Candida albicans CaO19.9887   potential amidase or N acetyltransferase similar to S. cerevisiae NIT3 (YLR351C)
Candida albicans CaO19.2351   potential amidase or N acetyltransferase similar to S. cerevisiae NIT3 (YLR351C)
Candida albicans CaO19.7279   potential amidase, nitrilase or N acetyltransferase similar to S. cerevisiae NIT2 (YJL126W)
Caenorhabditis elegans CELE_Y56A3A.13   Protein NFT-1
Dictyostelium discoideum DDB_G0273519   nitrilase 1
Dictyostelium discoideum DDB_G0287939   nitrilase 2
Dictyostelium discoideum DDB_G0273457   nitrilase 1
Drosophila melanogaster Dmel_CG8132   CG8132 gene product from transcript CG8132-RA
Drosophila melanogaster Dmel_CG7067   Nitrilase and fragile histidine triad fusion protein
Escherichia coli b0219   putative NAD(P)-binding C-N hydrolase family amidase
Echinococcus granulosus EgrG_000925700   Nitrilase and fragile histidine triad fusion
Entamoeba histolytica EHI_035680   hydrolase, carbon-nitrogen family
Entamoeba histolytica EHI_029230   hydrolase yafV, putative
Echinococcus multilocularis EmuJ_000925700   Nitrilase and fragile histidine triad fusion
Homo sapiens 56954   nitrilase family, member 2
Homo sapiens ENSG00000158793   nitrilase 1
Leishmania braziliensis LbrM.26.2200   nitrilase, putative
Leishmania donovani LdBPK_262290.1   nitrilase, putative
Leishmania infantum LinJ.26.2290   nitrilase, putative
Leishmania major LmjF.26.2280   nitrilase, putative
Leishmania mexicana LmxM.26.2280   nitrilase, putative
Loa Loa (eye worm) LOAG_00246   hydrolase
Mycobacterium leprae ML2449   POSSIBLE AMIDOHYDROLASE
Mus musculus ENSMUSG00000013997   nitrilase 1
Mus musculus ENSMUSG00000022751   nitrilase family, member 2
Mycobacterium tuberculosis Rv0480c   Possible amidohydrolase
Mycobacterium ulcerans MUL_4548   amidohydrolase
Neospora caninum NCLIV_039650   Genome sequencing data, contig C317, related
Oryza sativa 4340434   Os06g0206000
Oryza sativa 4331798   Os03g0175600
Oryza sativa 4352282   Os12g0502500
Oryza sativa 4329560   Os02g0533900
Saccharomyces cerevisiae YLR351C   Nit3p
Saccharomyces cerevisiae YJL126W   Nit2p
Schistosoma japonicum Sjp_0028200   ko:K00799 glutathione S-transferase [EC2.5.1.18], putative
Schistosoma japonicum Sjp_0205020   ko:K01501 nitrilase [EC3.5.5.1], putative
Schistosoma japonicum Sjp_0216580   ko:K01501 nitrilase [EC3.5.5.1], putative
Schistosoma mansoni Smp_056890.4   nitrilase-related
Schistosoma mansoni Smp_120080.1   nitrilase-related
Schmidtea mediterranea mk4.000371.00   Nitrilase and fragile histidine triad fusion protein NitFhit
Schmidtea mediterranea mk4.057682.00  
Schmidtea mediterranea mk4.001350.02   Omega-amidase NIT2
Schmidtea mediterranea mk4.044190.02  
Schmidtea mediterranea mk4.001350.05   Omega-amidase NIT2
Schmidtea mediterranea mk4.019302.00   Glutathione-s-transferase omega,putative
Schmidtea mediterranea mk4.023561.00   Omega-amidase NIT2
Schmidtea mediterranea mk4.001350.04   Nitrilase-related
Schmidtea mediterranea mk4.039319.00   Nitrilase-related
Trypanosoma brucei gambiense Tbg972.9.560   hypothetical protein, conserved,nitrilase, putative
Trypanosoma brucei Tb927.9.1960   nitrilase, putative
Trypanosoma congolense TcIL3000_0_36940   nitrilase, putative
Trypanosoma cruzi TcCLB.509979.150   nitrilase, putative
Trypanosoma cruzi TcCLB.510039.40   nitrilase, putative
Toxoplasma gondii TGME49_265860   hydrolase, carbon-nitrogen family protein
Trichomonas vaginalis TVAG_024850   conserved hypothetical protein

Essentiality

Rv0480c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu485 this record Mycobacterium tuberculosis non-essential nmpdr
Tb09.160.0770 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb09.160.0770 Trypanosoma brucei significant loss of fitness in bloodstream forms (6 days) alsford
Tb09.160.0770 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb09.160.0770 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0219 Escherichia coli non-essential goodall
TGME49_265860 Toxoplasma gondii Probably essential sidik
Show/Hide essentiality data references
  • 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.
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • 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
  • 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
  • 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)

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

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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Gene identifier Rv0480c (Mycobacterium tuberculosis), Possible amidohydrolase
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