Detailed view for Rv2925c

Basic information

TDR Targets ID: 7017
Mycobacterium tuberculosis, Probable ribonuclease III Rnc (RNase III)
Source Database / ID:  Tuberculist 

pI: 5.1362 | Length (AA): 240 | MW (Da): 25399 | 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

PF00035   Double-stranded RNA binding motif
PF14622   Ribonuclease-III-like

Gene Ontology

Mouse over links to read term descriptions.
GO:0005622   intracellular  
GO:0004525   ribonuclease III activity  
GO:0003725   double-stranded RNA binding  
GO:0003723   RNA binding  
GO:0016075   rRNA catabolic process  
GO:0006396   RNA processing  

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
1 227 1o0w (A) 1 235 39.00 0 1 1.38923 -0.43
2 155 2a11 (A) 2 155 99.99 0 1 1.92737 -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:

PDB tag
  • 2A11:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 60-80% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 20-40% 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_127728)

Species Accession Gene Product
Arabidopsis thaliana AT4G15417   protein RNAse II-like 1
Brugia malayi Bm1_51720   RNase3 domain containing protein
Candida albicans CaO19.11277   similar to S. cerevisiae RNT1 (YMR239C) ribonuclease III involved in 3' end processing of small RNAs and rRNA
Candida albicans CaO19.3796   similar to S. cerevisiae RNT1 (YMR239C) ribonuclease III involved in 3' end processing of small RNAs and rRNA
Caenorhabditis elegans CELE_F26E4.10   Protein DRSH-1, isoform B
Chlamydia trachomatis CT_297   ribonuclease III
Dictyostelium discoideum DDB_G0268410   dicer-like protein
Drosophila melanogaster Dmel_CG8730   CG8730 gene product from transcript CG8730-RA
Escherichia coli b2567   RNase III
Echinococcus granulosus EgrG_001182900   ribonuclease III
Echinococcus multilocularis EmuJ_001182900   ribonuclease III
Homo sapiens ENSG00000113360   drosha, ribonuclease type III
Loa Loa (eye worm) LOAG_02335   RNase3 domain-containing protein
Mycobacterium leprae ML1659c   PROBABLE RIBONUCLEASE III RNC (RNASE III)
Mus musculus ENSMUSG00000022191   drosha, ribonuclease type III
Mycobacterium tuberculosis Rv2925c   Probable ribonuclease III Rnc (RNase III)
Mycobacterium ulcerans MUL_2030   ribonuclease III
Oryza sativa 4325844   Os01g0551100
Oryza sativa 4340996   Os06g0358800
Onchocerca volvulus OVOC6835  
Saccharomyces cerevisiae YMR239C   Rnt1p
Schistosoma japonicum Sjp_0048900   ko:K03685 ribonuclease III, putative
Schistosoma mansoni Smp_142510.1   ribonuclease III
Schistosoma mansoni Smp_142510.2   ribonuclease III
Schmidtea mediterranea mk4.063273.00   Ribonuclease 3
Schmidtea mediterranea mk4.000125.07   Ribonuclease 3
Treponema pallidum TP0809   ribonuclease III (rnc)
Trichomonas vaginalis TVAG_481260   ribonuclease III, putative
Wolbachia endosymbiont of Brugia malayi Wbm0099   ribonuclease III

Essentiality

Rv2925c has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2973 this record Mycobacterium tuberculosis essential nmpdr
CELE_F26E4.10 Caenorhabditis elegans embryonic lethal wormbase
YMR239C Saccharomyces cerevisiae inviable yeastgenome
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.
  • 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
  • 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.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

2 literature references were collected for this gene.

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 Rv2925c (Mycobacterium tuberculosis), Probable ribonuclease III Rnc (RNase III)
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