Detailed view for Rv2101

Basic information

TDR Targets ID: 6199
Mycobacterium tuberculosis, Probable helicase HelZ
Source Database / ID:  Tuberculist 

pI: 5.6874 | Length (AA): 1013 | MW (Da): 111612 | 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

PF00176   SNF2 family N-terminal domain
PF00271   Helicase conserved C-terminal domain
PF12419   SNF2 Helicase protein

Gene Ontology

Mouse over links to read term descriptions.
GO:0005524   ATP binding  
GO:0004386   helicase activity  
GO:0003677   DNA binding  
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 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
510 1013 1z3i (X) 124 668 30.00 0 1 0.762932 0.07
516 1009 1z6a (A) 9 904 47.00 0 1 1.06126 -0.53
523 980 3mwy (W) 366 839 32.00 0 1 0.672722 0.6
532 977 5hzr (A) 553 1057 33.00 0 1 0.668876 0.22
830 977 1t5i (A) 270 406 19.00 0 0.91 0.359501 -0.4

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
Lower 20-40% percentile Dormant phase. murphy
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Dormant phase. hasan
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_128804)

Species Accession Gene Product
Arabidopsis thaliana AT3G54280   TATA-binding protein-associated factor BTAF1
Brugia malayi Bm1_36425   SNF2 family N-terminal domain containing protein
Candida albicans CaO19.4502   transcriptional accessory protein
Candida albicans CaO19.11978   transcriptional accessory protein
Caenorhabditis elegans CELE_F15D4.1   Protein BTF-1
Chlamydia trachomatis CT_708   SWF/SNF family helicase
Dictyostelium discoideum DDB_G0286219   CHR group protein
Drosophila melanogaster Dmel_CG4261   Helicase 89B
Echinococcus granulosus EgrG_000091200   TATA binding protein associated factor 172
Echinococcus granulosus EgrG_000091400   helicase
Echinococcus granulosus EgrG_000090900   TATA binding protein associated factor 172
Entamoeba histolytica EHI_178810   SNF2 family protein
Echinococcus multilocularis EmuJ_000090900   TATA binding protein associated factor 172
Echinococcus multilocularis EmuJ_000091200   TATA binding protein associated factor 172
Echinococcus multilocularis EmuJ_000091400   helicase
Homo sapiens ENSG00000095564   BTAF1 RNA polymerase II, B-TFIID transcription factor-associated, 170kDa
Loa Loa (eye worm) LOAG_02312   SNF2 family domain-containing protein
Mus musculus ENSMUSG00000040565   BTAF1 RNA polymerase II, B-TFIID transcription factor-associated, (Mot1 homolog, S. cerevisiae)
Mycobacterium tuberculosis Rv2101   Probable helicase HelZ
Oryza sativa 4328386   Os02g0161300
Saccharomyces cerevisiae YPL082C   Mot1p
Schistosoma japonicum Sjp_0018600   TATA-binding protein-associated factor 172, putative
Schistosoma japonicum Sjp_0108530   expressed protein
Schistosoma japonicum Sjp_0018590   TATA-binding protein-associated factor 172, putative
Schistosoma japonicum Sjp_0018580   ko:K01509 adenosinetriphosphatase [EC3.6.1.3], putative
Schistosoma mansoni Smp_158610.1   helicase
Schistosoma mansoni Smp_158610.2   helicase
Schmidtea mediterranea mk4.001776.02   TATA-binding protein-associated factor 172
Trichomonas vaginalis TVAG_142600   lymphoid specific helicase, putative
Trichomonas vaginalis TVAG_142590   conserved hypothetical protein
Trichomonas vaginalis TVAG_044640   lymphoid specific helicase, putative

Essentiality

Rv2101 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2134 this record Mycobacterium tuberculosis non-essential nmpdr
YPL082C Saccharomyces cerevisiae inviable yeastgenome
Show/Hide essentiality data references
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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
  • 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
  • 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.
  • 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
  • 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.
  • 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

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

Druggability index (range: 0 to 1): 0.2

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 Rv2101 (Mycobacterium tuberculosis), Probable helicase HelZ
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