Detailed view for Rv3305c

Basic information

TDR Targets ID: 5656
Mycobacterium tuberculosis, Possible N-acyl-L-amino acid amidohydrolase AmiA1 (N-acyl-L-amino acid aminohydrolase)
Source Database / ID:  Tuberculist 

pI: 5.8225 | Length (AA): 389 | MW (Da): 41227 | 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

PF01546   Peptidase family M20/M25/M40

Gene Ontology

Mouse over links to read term descriptions.
GO:0046983   protein dimerization activity  
GO:0016787   hydrolase activity  
GO:0008237   metallopeptidase activity  
GO:0008152   metabolic process  
GO:0006508   proteolysis  

Metabolic Pathways

Caprolactam degradation (KEGG)

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
1 387 2zog (A) 1 471 18.00 0 1 0.917159 0.82
3 387 4ewt (A) 1 388 29.00 0 1 1.33892 -0.25
74 149 3tkt (A) 243 310 40.00 0.32 0.14 0.314673 1.71

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 20-40% 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_127543)

Species Accession Gene Product
Arabidopsis thaliana AT1G51760   IAA-amino acid hydrolase IAR3
Arabidopsis thaliana AT3G02875   IAA-amino acid hydrolase ILR1
Arabidopsis thaliana AT5G56660   IAA-amino acid hydrolase ILR1-like 2
Arabidopsis thaliana AT5G56650   IAA-amino acid hydrolase ILR1-like 1
Arabidopsis thaliana AT1G51780   IAA-amino acid hydrolase ILR1-like 5
Dictyostelium discoideum DDB_G0280767   hypothetical protein
Escherichia coli b1338   p-aminobenzoyl-glutamate hydrolase, A subunit
Leishmania braziliensis LbrM.20.5910   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania braziliensis LbrM.31.1330   N-acyl-L-amino acid amidohydrolase, putative
Leishmania braziliensis LbrM.20.5930   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania braziliensis LbrM.20.5920   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania donovani LdBPK_311130.1   amidohydrolase, putative
Leishmania donovani LdBPK_301440.1   amidohydrolase, putative
Leishmania infantum LinJ.31.1140   N-acyl-L-amino acid amidohydrolase, putative
Leishmania infantum LinJ.30.1440   N-acyl-L-amino acid amidohydrolase, putative
Leishmania infantum LinJ.20.1740   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania infantum LinJ.20.1720   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania infantum LinJ.20.1730   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania infantum LinJ.31.1130   N-acyl-L-amino acid amidohydrolase, putative
Leishmania major LmjF.20.1550   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania major LmjF.31.1130   N-acyl-L-amino acid amidohydrolase, putative
Leishmania major LmjF.20.1570   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania major LmjF.20.1560   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania major LmjF.30.1380   N-acyl-L-amino acid amidohydrolase, putative
Leishmania mexicana LmxM.20.1550   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania mexicana LmxM.20.1570   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania mexicana LmxM.30.1130   N-acyl-L-amino acid amidohydrolase, putative
Leishmania mexicana LmxM.20.1560   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Leishmania mexicana LmxM.29.1380   N-acyl-L-amino acid amidohydrolase, putative
Mycobacterium tuberculosis Rv3305c   Possible N-acyl-L-amino acid amidohydrolase AmiA1 (N-acyl-L-amino acid aminohydrolase)
Mycobacterium ulcerans MUL_2671   N-acyl-L-amino acid amidohydrolase AmiA1
Neospora caninum NCLIV_069500   Thermostable carboxypeptidase 1 (EC 3.4.17.-), related
Oryza sativa 4327677   Os01g0706900
Oryza sativa 4342838   Os07g0249700
Oryza sativa 4324686   Os01g0560000
Oryza sativa 4334708   Os03g0836900
Trypanosoma brucei gambiense Tbg972.1.1810   aminoacylase, putative,N-acyl-L-amino acid amidohydrolase, putative
Trypanosoma brucei Tb927.1.3000   amidohydrolase, putative
Trypanosoma congolense TcIL3000_1_1430   amidohydrolase, putative
Trypanosoma cruzi TcCLB.506363.70   amidohydrolase, putative
Trypanosoma cruzi TcCLB.506975.40   amidohydrolase, putative
Trypanosoma cruzi TcCLB.506975.30   amidohydrolase, putative
Trypanosoma cruzi TcCLB.506363.90   amidohydrolase, putative
Toxoplasma gondii TGME49_213520   peptidase M20D, amidohydrolase
Trichomonas vaginalis TVAG_050870   Clan MH, family M20, peptidase T-like metallopeptidase

Essentiality

Rv3305c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3364 this record Mycobacterium tuberculosis non-essential nmpdr
Tb927.1.3000 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.1.3000 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.1.3000 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.1.3000 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
b1338 Escherichia coli non-essential goodall
TGME49_213520 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170

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

111 literature references were collected for this gene.

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

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Gene identifier Rv3305c (Mycobacterium tuberculosis), Possible N-acyl-L-amino acid amidohydrolase AmiA1 (N-acyl-L-amino acid aminohydrolase)
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