Detailed view for Rv1205

Basic information

TDR Targets ID: 7809
Mycobacterium tuberculosis, Conserved hypothetical protein
Source Database / ID:  Tuberculist 

pI: 4.3348 | Length (AA): 187 | MW (Da): 20014 | Paralog Number: 0

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

PF03641   Possible lysine decarboxylase

Gene Ontology

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

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
9 186 3qua (A) 16 193 73.00 0 1 1.93547 -1.58
10 186 3sbx (A) 10 186 83.00 0 1 2.02912 -1.57

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 60-80% 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_128808)

Species Accession Gene Product
Arabidopsis thaliana AT5G11950   cytokinin riboside 5'-monophosphate phosphoribohydrolase LOG8
Arabidopsis thaliana AT2G35990   cytokinin riboside 5'-monophosphate phosphoribohydrolase LOG2
Arabidopsis thaliana AT5G06300   cytokinin riboside 5'-monophosphate phosphoribohydrolase LOG7
Arabidopsis thaliana AT2G28305   cytokinin riboside 5'-monophosphate phosphoribohydrolase LOG1
Arabidopsis thaliana AT3G53450   cytokinin riboside 5'-monophosphate phosphoribohydrolase LOG4
Arabidopsis thaliana AT2G37210   cytokinin riboside 5'-monophosphate phosphoribohydrolase LOG3
Candida albicans CaO19.1723   similar to S. cerevisiae YJL055W
Candida albicans CaO19.9291   similar to S. cerevisiae YJL055W
Dictyostelium discoideum DDB_G0281309   hypothetical protein
Leishmania braziliensis LbrM.17.0800   ysine decarboxylase-like protein
Leishmania donovani LdBPK_170880.1   ysine decarboxylase-like protein
Leishmania infantum LinJ.17.0880   ysine decarboxylase-like protein
Leishmania major LmjF.17.0735   ysine decarboxylase-like protein
Leishmania mexicana LmxM.17.0735   ysine decarboxylase-like protein
Mycobacterium leprae ML1061   conserved hypothetical protein
Mycobacterium tuberculosis Rv1205   Conserved hypothetical protein
Mycobacterium ulcerans MUL_0956   hypothetical protein
Oryza sativa 4331344   Os03g0109300
Oryza sativa 4336417   Os04g0518800
Oryza sativa 4339790   Os05g0591600
Oryza sativa 4348914   Os10g0479500
Oryza sativa 4327684   Os01g0708500
Oryza sativa 4333807   Os03g0697200
Oryza sativa 4339472   Os05g0541200
Oryza sativa 4324445   Os01g0588900
Oryza sativa 4334848   Os03g0857900
Saccharomyces cerevisiae YJL055W   hypothetical protein

Essentiality

Rv1205 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1226 this record Mycobacterium tuberculosis non-essential nmpdr
Show/Hide essentiality data references
  • 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
  • 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
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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.

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 Rv1205 (Mycobacterium tuberculosis), Conserved hypothetical protein
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