Detailed view for Rv3211

Basic information

TDR Targets ID: 7001
Mycobacterium tuberculosis, Probable ATP-dependent RNA helicase RhlE
Source Database / ID:  Tuberculist 

pI: 9.3056 | Length (AA): 527 | MW (Da): 56703 | 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

PF00270   DEAD/DEAH box helicase
PF00271   Helicase conserved C-terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0008026   ATP-dependent helicase activity  
GO:0005524   ATP binding  
GO:0004386   helicase activity  
GO:0003676   nucleic acid binding  

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
10 233 5gju (A) 6 210 50.00 0 1 1.05135 -1.56
12 409 5ivl (B) 4 384 45.00 0 1 1.29952 -0.84
19 449 2p6u (A) 4 457 16.00 0 1 0.869737 0.25
256 363 2v1x (A) 299 407 27.00 0.0018 1 0.750134 -1.81

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 80-100% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Upper 60-80% 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_128505)

Species Accession Gene Product
Arabidopsis thaliana AT3G22310   DEAD-box ATP-dependent RNA helicase
Arabidopsis thaliana AT5G62190   DEAD/DEAH box RNA helicase PRH75
Arabidopsis thaliana AT3G22330   putative mitochondrial RNA helicase 2
Arabidopsis thaliana AT5G26742   DEAD-box ATP-dependent RNA helicase 3
Cryptosporidium hominis Chro.60561   DEAD/DEAH box helicase
Cryptosporidium parvum cgd6_4860   nucleolar protein GU2. eIF4A-1-family. RNA SFII helicase
Echinococcus granulosus EgrG_000068900   DEAD Asp Glu Ala Asp box polypeptide 21
Entamoeba histolytica EHI_119920   DEAD/DEAH box helicase, putative
Echinococcus multilocularis EmuJ_000068900   DEAD (Asp Glu Ala Asp) box polypeptide 21
Homo sapiens ENSG00000107625   DEAD (Asp-Glu-Ala-Asp) box polypeptide 50
Homo sapiens ENSG00000165732   DEAD (Asp-Glu-Ala-Asp) box helicase 21
Leishmania braziliensis LbrM.05.0140   nucleolar RNA helicase II, putative
Leishmania donovani LdBPK_050140.1   nucleolar RNA helicase II, putative
Leishmania infantum LinJ.05.0140   nucleolar RNA helicase II, putative
Leishmania major LmjF.05.0140   nucleolar RNA helicase II, putative
Leishmania mexicana LmxM.05.0140   nucleolar RNA helicase II, putative
Mus musculus ENSMUSG00000020075   DEAD (Asp-Glu-Ala-Asp) box polypeptide 21
Mus musculus ENSMUSG00000020076   DEAD (Asp-Glu-Ala-Asp) box polypeptide 50
Mycobacterium tuberculosis Rv3211   Probable ATP-dependent RNA helicase RhlE
Mycobacterium ulcerans MUL_2533   ATP-dependent RNA helicase RhlE
Neospora caninum NCLIV_005540   hypothetical protein
Neospora caninum NCLIV_053820   DEAD box RNA helicase, related
Oryza sativa 4347610   Os09g0520700
Oryza sativa 4334649   Os03g0827700
Plasmodium berghei PBANKA_1104000   ATP-dependent helicase, putative
Plasmodium falciparum PF3D7_0504400   ATP-dependent helicase, putative
Plasmodium knowlesi PKNH_1029200   ATP-dependent helicase, putative
Plasmodium vivax PVX_097785   ATP-dependent helicase, putative
Plasmodium yoelii PY03841   Unknown protein
Schistosoma mansoni Smp_157800   DEAD box ATP-dependent RNA helicase
Schmidtea mediterranea mk4.013834.00   Putative dead box ATP-dependent RNA helicase
Trypanosoma brucei gambiense Tbg972.5.5960   nucleolar RNA helicase II, putative,nucleolar RNA helicase Gu, putative
Trypanosoma brucei Tb927.5.4420   nucleolar RNA helicase II, putative
Trypanosoma brucei Tb05.5K5.70   nucleolar RNA helicase II, putative
Trypanosoma congolense TcIL3000_0_18690   nucleolar RNA helicase II, putative
Trypanosoma congolense TcIL3000_5_5060   nucleolar RNA helicase II, putative
Trypanosoma cruzi TcCLB.508205.20   nucleolar RNA helicase II, putative
Trypanosoma cruzi TcCLB.506123.40   nucleolar RNA helicase II, putative
Toxoplasma gondii TGME49_222140   DEAD/DEAH box helicase domain-containing protein
Toxoplasma gondii TGME49_309570   DEAD/DEAH box helicase domain-containing protein

Essentiality

Rv3211 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
Tb927.5.4420 Trypanosoma brucei significant loss of fitness in bloodstream forms (3 days) alsford
Tb927.5.4420 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (6 days) alsford
Tb927.5.4420 Trypanosoma brucei significant loss of fitness in procyclic forms alsford
Tb927.5.4420 Trypanosoma brucei significant loss of fitness in differentiation of procyclic to bloodstream forms alsford
PBANKA_1104000 Plasmodium berghei Essential plasmo
TGME49_222140 Toxoplasma gondii Probably essential sidik
TGME49_309570 Toxoplasma gondii Probably essential sidik
TGME49_222140 Toxoplasma gondii Essentiality uncertain sidik
TGME49_309570 Toxoplasma gondii Essentiality uncertain sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • 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
  • 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.
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • 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.

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.

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Gene identifier Rv3211 (Mycobacterium tuberculosis), Probable ATP-dependent RNA helicase RhlE
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