Detailed view for Rv1033c

Basic information

TDR Targets ID: 9978
Mycobacterium tuberculosis, Two component transcriptional regulator TrcR

Source Database / ID:  Tuberculist 

pI: 6.0516 | Length (AA): 257 | MW (Da): 29209 | Paralog Number: 5

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

PF00072   Response regulator receiver domain
PF00486   Transcriptional regulatory protein, C terminal

Gene Ontology

Mouse over links to read term descriptions.
GO:0006355   regulation of transcription, DNA-dependent  
GO:0000160   two-component signal transduction system (phosphorelay)  
GO:0003677   DNA binding  
GO:0000156   two-component response regulator activity  

Metabolic Pathways

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
28 256 2gwr (A) 2 228 39.00 0 1 1.44345 -1.23
30 254 1ys7 (A) 7 231 43.00 0 1 1.53189 -1.65
31 149 3f6p (A) 2 119 47.00 0 1 1.22894 -2.29
32 78 3c3w (A) 2 50 30.00 0 0.26 0.433279 0.08
33 156 4uhj (A) 3 124 49.00 0 1 1.23029 -1.77

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:

  • 1YS6:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
  • 1YS7:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
  • 2GWR:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
  • 2OQR:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
  • 3R0J:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
  • 5ED4:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile Dormant phase. hasan
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_128013)

Species Accession Gene Product
Escherichia coli b1969   response regulator family protein
Escherichia coli b4113   response regulator in two-component regulatory system with BasS
Escherichia coli b0571   response regulator in two-component regulatory system with CusS
Escherichia coli b3025   quorum sensing DNA-binding response regulator in two-component regulatory system with QseC
Mycobacterium leprae ML2123   TWO COMPONENT RESPONSE TRANSCRIPTIONAL REGULATORY PROTEIN PRRA
Mycobacterium leprae ML0174   Mycobacterial persistence regulator MrpA (two-component response transcriptional regulatory protein)
Mycobacterium tuberculosis Rv0903c   Two component response transcriptional regulatory protein PrrA
Mycobacterium tuberculosis Rv0602c   Two component DNA binding transcriptional regulatory protein TcrA
Mycobacterium tuberculosis Rv0757   Possible two component system response transcriptional positive regulator PhoP
Mycobacterium tuberculosis Rv0981   Mycobacterial persistence regulator MRPA (two component response transcriptional regulatory protein)
Mycobacterium tuberculosis Rv3765c   Probable two component transcriptional regulatory protein TcrX
Mycobacterium tuberculosis Rv1033c   Two component transcriptional regulator TrcR
Mycobacterium ulcerans MUL_0248   two component response transcriptional regulatory protein PrrA
Mycobacterium ulcerans MUL_4624   two component transcriptional regulator TrcR
Mycobacterium ulcerans MUL_4391   two component transcriptional regulatory protein TcrX
Mycobacterium ulcerans MUL_4701   two component response transcriptional regulatory protein MprA
Mycobacterium ulcerans MUL_0463   two component system response phosphate regulon transcriptional regulator, PhoP
Schmidtea mediterranea mk4.105972.00  
Schmidtea mediterranea mk4.042982.00  
Trypanosoma congolense TcIL3000_0_45650   heavy metal response regulator, putative
Wolbachia endosymbiont of Brugia malayi Wbm0596   response regulator

Essentiality

Rv1033c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu772 Mycobacterium tuberculosis non-essential nmpdr
mtu3830 Mycobacterium tuberculosis non-essential nmpdr
mtu1050 this record Mycobacterium tuberculosis non-essential nmpdr
b0571 Escherichia coli non-essential goodall
b1969 Escherichia coli non-essential goodall
b3025 Escherichia coli non-essential goodall
b4113 Escherichia coli non-essential goodall
Show/Hide essentiality data references
  • 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
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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
  • 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
  • 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.

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.

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Gene identifier Rv1033c (Mycobacterium tuberculosis), Two component transcriptional regulator TrcR
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