Detailed view for Rv1400c

Basic information

TDR Targets ID: 6307
Mycobacterium tuberculosis, Probable lipase LipH

Source Database / ID:  Tuberculist 

pI: 4.6409 | Length (AA): 320 | MW (Da): 34053 | Paralog Number: 3

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

PF07859   alpha/beta hydrolase fold

Gene Ontology

Mouse over links to read term descriptions.
GO:0016787   hydrolase activity  
GO:0008152   metabolic process  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in 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
2 320 1lzl (A) 9 315 34.00 0 1 1.37048 -0.42
12 318 4ypv (A) 1 310 43.00 0 1 1.54387 -1.21

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. hasan
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Dormant phase. murphy
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_126961)

Species Accession Gene Product
Arabidopsis thaliana AT3G05120   putative gibberellin receptor GID1L1
Arabidopsis thaliana AT5G23530   carboxyesterase 18
Arabidopsis thaliana AT5G27320   gibberellin receptor GID1C
Arabidopsis thaliana AT5G06570   probable carboxylesterase 15
Brugia malayi Bm1_32020   aryl-acylamidase
Caenorhabditis elegans CELE_F16F9.4   Protein F16F9.4
Cryptosporidium hominis Chro.40044   hypothetical protein
Cryptosporidium parvum cgd4_300   lipase/esterase, putative
Dictyostelium discoideum DDB_G0283819   hypothetical protein
Dictyostelium discoideum DDB_G0286925   esterase/lipase/thioesterase domain-containing protein
Escherichia coli b0476   acetyl esterase
Homo sapiens ENSG00000114771   arylacetamide deacetylase
Homo sapiens ENSG00000197953   arylacetamide deacetylase-like 2
Loa Loa (eye worm) LOAG_13843   aryl-acylamidase
Mus musculus ENSMUSG00000036951   RIKEN cDNA C130079G13 gene
Mus musculus ENSMUSG00000078506   predicted gene 13124
Mus musculus ENSMUSG00000027761   arylacetamide deacetylase (esterase)
Mus musculus 669780   predicted gene, 16527
Mus musculus 435732   predicted gene 5709
Mus musculus ENSMUSG00000091376   arylacetamide deacetylase-like 2
Mus musculus ENSMUSG00000095522   predicted gene 8298
Mus musculus ENSMUSG00000090527   predicted gene 5538
Mycobacterium tuberculosis Rv1399c   Probable non lipolytic carboxylesterase NlhH
Mycobacterium tuberculosis Rv1400c   Probable lipase LipH
Mycobacterium tuberculosis Rv2970c   Probable lipase/esterase LipN
Mycobacterium tuberculosis Rv0217c   Possible esterase LipW
Mycobacterium ulcerans MUL_3141   esterase/lipase
Mycobacterium ulcerans MUL_1794   lipase LipH
Mycobacterium ulcerans MUL_1054   esterase LipW
Mycobacterium ulcerans MUL_1795   lipase LipI
Mycobacterium ulcerans MUL_1989   lipase/esterase LipN
Neospora caninum NCLIV_015570   alpha/beta hydrolase fold domain containing protein, putative
Oryza sativa 4324508   Os01g0153800
Oryza sativa 4340844   Os06g0306600
Oryza sativa 9268360   Os07g0643000
Oryza sativa 4342460   Os07g0162400
Oryza sativa 4344083   Os07g0643700
Oryza sativa 9270235   Os07g0643601
Oryza sativa 4343857   Os07g0606800
Oryza sativa 4334379   Os03g0790500
Oryza sativa 4342464   Os07g0162900
Oryza sativa 4344081   Os07g0643400
Oryza sativa 9267725   Os11g0239600
Oryza sativa 4350163   Os11g0240000
Oryza sativa 4324077   Os01g0155000
Oryza sativa 4342461   Os07g0162500
Oryza sativa 4344080   Os07g0643100
Oryza sativa 4342463   Os07g0162700
Oryza sativa 4342462   Os07g0162600
Oryza sativa 4338764   Os05g0407500
Oryza sativa 4350164   Os11g0240600
Oryza sativa 4324076   Os01g0154900
Onchocerca volvulus OVOC3365  
Toxoplasma gondii TGME49_238200   alpha/beta hydrolase fold domain-containing protein

Essentiality

Rv1400c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1422 Mycobacterium tuberculosis non-essential nmpdr
mtu1423 this record Mycobacterium tuberculosis non-essential nmpdr
mtu3019 Mycobacterium tuberculosis non-essential nmpdr
b0476 Escherichia coli non-essential goodall
TGME49_238200 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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
  • 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.

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): 0.3


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 arylacetamide deacetylase Compounds References
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.

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

User comments

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Gene identifier Rv1400c (Mycobacterium tuberculosis), Probable lipase LipH
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