Detailed view for Rv3854c

Basic information

TDR Targets ID: 5966
Mycobacterium tuberculosis, Monooxygenase EthA

Source Database / ID:  Tuberculist 

pI: 8.2239 | Length (AA): 489 | MW (Da): 55326 | Paralog Number: 1

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

PF00743   Flavin-binding monooxygenase-like
PF13450   NAD(P)-binding Rossmann-like domain
PF13738  

Gene Ontology

Mouse over links to read term descriptions.
GO:0050661   NADP binding  
GO:0050660   FAD binding  
GO:0016491   oxidoreductase activity  
GO:0004499   flavin-containing monooxygenase activity  
GO:0055114   oxidation reduction  

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
2 425 1w4x (A) 14 480 24.00 0 1 1.00898 0.03
3 483 5j7x (A) 11 543 18.00 0 1 1.10854 0.2
4 482 5j7x (A) 12 542 27.00 0 1 1.16175 0.11
407 461 3epr (A) 208 259 40.00 0.87 0.92 0.310674 -0.33

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, 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_140305)

Species Accession Gene Product
Mycobacterium leprae ML0065   Probable monooxygenase EthA
Mycobacterium tuberculosis Rv0565c   Probable monooxygenase
Mycobacterium tuberculosis Rv3854c   Monooxygenase EthA
Mycobacterium ulcerans MUL_4352   monooxygenase-like flavoprotein
Mycobacterium ulcerans MUL_5026   monooxygenase EthA

Essentiality

Rv3854c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3921 this record Mycobacterium tuberculosis non-essential nmpdr
mtu573 Mycobacterium tuberculosis non-essential nmpdr
Show/Hide essentiality data references
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • 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
  • 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.
  • 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

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

  • BRENDA Assay
  • An enzyme with this EC number or name or sequence has been assayed in Mycobacterium tuberculosis ( 1 )

Reagent availability

  • Reagent:
  • Target Type Source Notes
    Rv3854c cloned gene BRENDA A gene with this EC number or name or sequence has been cloned from Mycobacterium tuberculosis ( 1 )

Bibliographic References

No literature references available for this target.

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Gene identifier Rv3854c (Mycobacterium tuberculosis), Monooxygenase EthA
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