Detailed view for Rv3226c

Basic information

TDR Targets ID: 9015
Mycobacterium tuberculosis, Conserved hypothetical protein
Source Database / ID:  Tuberculist 

pI: 5.3837 | Length (AA): 252 | MW (Da): 27640 | 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

PF02586   SOS response associated peptidase (SRAP)

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 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
1 242 2f20 (A) 14 232 26.00 0 1 1.19682 -0.34
2 241 5ko9 (A) 2 269 29.00 0 1 1.31388 -0.61
33 241 5ko9 (A) 41 269 36.00 0 1 1.25827 -0.68
195 233 1s4k (A) 34 72 28.00 0.93 0.1 0.511662 -0.76

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
Mid 40-60% 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_129357)

Species Accession Gene Product
Arabidopsis thaliana AT2G26470   hypothetical protein
Candida albicans CaO19.3021   similar to S. cerevisiae YMR114C
Candida albicans CaO19.10539   similar to S. cerevisiae YMR114C
Drosophila melanogaster Dmel_CG11986   CG11986 gene product from transcript CG11986-RA
Escherichia coli b1931   DUF159 family protein
Echinococcus granulosus EgrG_000705400   protein of unknown function DUF159
Echinococcus multilocularis EmuJ_000705400   protein of unknown function DUF159
Homo sapiens ENSG00000183624   5-hydroxymethylcytosine (hmC) binding, ES cell-specific
Mycobacterium leprae ML0793   conserved hypothetical protein
Mus musculus ENSMUSG00000030060   5-hydroxymethylcytosine (hmC) binding, ES cell specific
Mycobacterium tuberculosis Rv3226c   Conserved hypothetical protein
Mycobacterium ulcerans MUL_2559   hypothetical protein
Neospora caninum NCLIV_066590   UPF0361 protein DC12 homolog, related
Oryza sativa 4341015   Os06g0470800
Saccharomyces cerevisiae YMR114C   hypothetical protein
Schistosoma japonicum Sjp_0309730   similar to Uncharacterized protein YMR114C, putative
Schistosoma mansoni Smp_163330   hypothetical protein
Toxoplasma gondii TGME49_251490   ACR, COG2135 domain-containing protein
Trichomonas vaginalis TVAG_110360   conserved hypothetical protein

Essentiality

Rv3226c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu3285 this record Mycobacterium tuberculosis non-essential nmpdr
b1931 Escherichia coli non-essential goodall
TGME49_251490 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.

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 Rv3226c (Mycobacterium tuberculosis), Conserved hypothetical protein
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