Detailed view for Rv3175

Basic information

TDR Targets ID: 8970
Mycobacterium tuberculosis, Possible amidase (aminohydrolase)
Source Database / ID:  Tuberculist 

pI: 7.5803 | Length (AA): 495 | MW (Da): 52082 | 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

PF01425   Amidase

Gene Ontology

Mouse over links to read term descriptions.
GO:0016884   carbon-nitrogen ligase activity, with glutamine as amido-N-donor  

Structural information

Modbase 3D models:

There are 5 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
7 485 5h6t (B) 1 448 30.00 0 1 1.30378 -0.17
8 495 5ewq (A) 65 536 20.00 0 1 1.16196 0.33
14 488 2dc0 (A) 1 434 29.00 0 1 1.2478 -0.22
14 486 6c62 (A) 1 450 27.00 0 1 1.24966 -0.15
140 197 3t2n (L) 42 91 44.00 0.56 0.26 0.211372 1.15

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 80-100% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Dormant phase. hasan
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_132214)

Species Accession Gene Product
Brugia malayi Bm1_48180   Amidase family protein
Caenorhabditis elegans CELE_Y53F4B.18   Protein Y53F4B.18
Drosophila melanogaster Dmel_CG8839   CG8839 gene product from transcript CG8839-RA
Homo sapiens ENSG00000165591   fatty acid amide hydrolase 2
Leishmania braziliensis LbrM.16.1410   hypothetical protein, conserved
Leishmania donovani LdBPK_161430.1   amidase, putative
Leishmania infantum LinJ.16.1430   hypothetical protein, conserved
Leishmania major LmjF.16.1360   hypothetical protein, conserved
Leishmania mexicana LmxM.16.1360   hypothetical protein, conserved
Loa Loa (eye worm) LOAG_09761   amidase
Mycobacterium tuberculosis Rv3175   Possible amidase (aminohydrolase)
Trypanosoma brucei gambiense Tbg972.8.4900   hypothetical protein, conserved
Trypanosoma brucei Tb927.8.5080   fatty-acid amide hydrolase, putative
Trypanosoma congolense TcIL3000_8_4840   hypothetical protein, conserved
Trypanosoma cruzi TcCLB.508839.80   amidase, putative
Trypanosoma cruzi TcCLB.511381.50   amidase, putative

Essentiality

Rv3175 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3227 this record Mycobacterium tuberculosis non-essential nmpdr
Tb927.8.5080 Trypanosoma brucei significant gain of fitness in bloodstream forms (3 days) alsford
Tb927.8.5080 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.8.5080 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.8.5080 Trypanosoma brucei significant gain of fitness in differentiation of procyclic to bloodstream forms alsford
Show/Hide essentiality data references
  • 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.
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan

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 fatty acid amide hydrolase 2 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
0.016 0.3189 1

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.

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User comments

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Gene identifier Rv3175 (Mycobacterium tuberculosis), Possible amidase (aminohydrolase)
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