Detailed view for Rv3487c

Basic information

TDR Targets ID: 981235
Mycobacterium tuberculosis, Probable esterase/lipase LipF
Source Database / ID:  Tuberculist 

pI: 7.5099 | Length (AA): 277 | MW (Da): 29398 | Paralog Number: 4

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  

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 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
1 246 3qh4 (A) 69 311 25.00 0 1 1.26179 -0.92
1 250 3wj1 (A) 62 305 27.00 0 1 1.27223 -0.48
1 245 5gms (A) 60 295 34.00 0 1 1.36618 -0.9
79 118 3llc (A) 102 144 40.00 0.13 0.49 0.469204 0.45

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_131762)

Species Accession Gene Product
Mycobacterium leprae ML0314c   Possible lipase LipU
Mycobacterium tuberculosis Rv2385   Putative acetyl hydrolase MbtJ
Mycobacterium tuberculosis Rv3084   Probable acetyl-hydrolase/esterase LipR
Mycobacterium tuberculosis Rv1076   Possible lipase LipU
Mycobacterium tuberculosis Rv3097c   PE-PGRS family protein, triacylglycerol lipase LipY (esterase/lipase) (triglyceride lipase) (tributyrase)
Mycobacterium tuberculosis Rv3487c   Probable esterase/lipase LipF
Mycobacterium ulcerans MUL_2832   lipase LipU
Mycobacterium ulcerans MUL_3067   hypothetical protein
Mycobacterium ulcerans MUL_3642   acetyl hydrolase MbtJ
Mycobacterium ulcerans MUL_0204   lipase LipU
Neospora caninum NCLIV_066210   esterase, putative
Toxoplasma gondii TGME49_250360   alpha/beta hydrolase fold domain-containing protein
Treponema pallidum TP0935   N-acetylphosphinothricin-tripetide-deacetylase
Trichomonas vaginalis TVAG_222050   conserved hypothetical protein
Trichomonas vaginalis TVAG_047290   Esterase, putative
Trichomonas vaginalis TVAG_341370   Esterase, putative
Trichomonas vaginalis TVAG_276160   Esterase, putative

Essentiality

Rv3487c has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu3137 Mycobacterium tuberculosis non-essential nmpdr
mtu2426 Mycobacterium tuberculosis non-essential nmpdr
TGME49_250360 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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.

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 Rv3487c (Mycobacterium tuberculosis), Probable esterase/lipase LipF
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