Detailed view for Rv3133c

Basic information

TDR Targets ID: 981397
Mycobacterium tuberculosis, Two component transcriptional regulatory protein DevR (probably LuxR/UhpA-family)
Source Database / ID:  Tuberculist 

pI: 5.4492 | Length (AA): 217 | MW (Da): 23262 | 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

No Pfam domain information for this protein.

Gene Ontology

Mouse over links to read term descriptions.
No GO information for this protein.

Metabolic Pathways

Two-component system (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
1 211 3c3w (A) 1 211 99.99 0 1 2.20435 -1.43
2 122 3eul (A) 9 129 34.00 0.0000000000067 1 1.1786 -1.92

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_127928)

Species Accession Gene Product
Escherichia coli b2193   response regulator in two-component regulatory system with NarQ or NarX
Escherichia coli b1221   response regulator in two-component regulatory system with NarX (or NarQ)
Escherichia coli b1914   response regulator in two-component regulatory system with BarA
Mycobacterium tuberculosis Rv3133c   Two component transcriptional regulatory protein DevR (probably LuxR/UhpA-family)
Mycobacterium tuberculosis Rv0844c   Possible nitrate/nitrite response transcriptional regulatory protein NarL
Mycobacterium ulcerans MUL_0351   nitrate/nitrite response regulator protein NarL
Mycobacterium ulcerans MUL_3814   two component transcriptional regulator
Mycobacterium ulcerans MUL_2423   two component transcriptional regulatory protein DevR
Treponema pallidum TP0366   chemotaxis response regulator (cheY)

Essentiality

Rv3133c has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
mtu860 Mycobacterium tuberculosis non-essential nmpdr
b1221 Escherichia coli non-essential goodall
b1914 Escherichia coli non-essential goodall
b2193 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • 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.
  • 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.
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • 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
  • 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
  • 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

  • ChEMBL
  • Inhibition of Mycobacterium tuberculosis phosphorylated DevR binding to fdxA promoter DNA after 10 mins by EMSA
  • ChEMBL
  • Inhibition of Mycobacterium tuberculosis phosphorylated DevR binding to fdxA promoter DNA at 250 uM after 10 mins by EMSA
  • ChEMBL
  • Inhibition of Mycobacterium tuberculosis phosphorylated DevR binding to fdxA promoter DNA at 500 uM after 10 mins by EMSA
  • ChEMBL
  • Inhibition of Mycobacterium tuberculosis phosphorylated DevR binding to fdxA promoter DNA added before DevR phosphorylation by EMSA
  • ChEMBL
  • Inhibition of Mycobacterium tuberculosis phosphorylated DevR binding to fdxA promoter DNA added after DevR phosphorylation by EMSA
  • ChEMBL
  • Inhibition of DevR region-dependent Rv3134c promoter activity in Mycobacterium tuberculosis H37Rv at 250 uM after 48 hrs by GFP reporter gene assay
  • ChEMBL
  • Inhibition of DevR region-dependent Rv3134c promoter activity in Mycobacterium tuberculosis H37Rv after 48 hrs by GFP reporter gene assay
  • ChEMBL
  • Inhibition of DevR region-dependent narK2 promoter activity in Mycobacterium tuberculosis H37Rv after 48 hrs by GFP reporter gene assay
  • ChEMBL
  • Inhibition of DevR region-dependent hspX promoter activity in Mycobacterium tuberculosis H37Rv after 48 hrs by GFP reporter gene assay

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 Rv3133c (Mycobacterium tuberculosis), Two component transcriptional regulatory protein DevR (probably LuxR/UhpA-family)
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