Detailed view for Rv1996

Basic information

TDR Targets ID: 8272
Mycobacterium tuberculosis, Universal stress protein family protein

Source Database / ID:  Tuberculist 

pI: 6.9335 | Length (AA): 317 | MW (Da): 33880 | Paralog Number: 8

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

PF00582   Universal stress protein family

Gene Ontology

Mouse over links to read term descriptions.
GO:0006950   response to stress  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 3 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
6 42 1jmv (A) 1 37 24.00 0.027 0.42 0.450019 -0.73
6 308 3cis (A) 6 293 47.00 0 1 1.48564 -0.69
8 41 3ab7 (A) 1 34 29.00 0.28 0.49 0.470556 -0.46

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:

  • 2JAX:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date
  • 3CIS:
  • Resolution Method # Atoms # Residues Dep. Date Pub. Date Mod. Date

Expression

Upregulation Percent Ranking Stage Dataset
Upper 80-100% percentile Dormant phase, Dormant phase. hasan 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_126997)

Species Accession Gene Product
Arabidopsis thaliana AT1G68300   Adenine nucleotide alpha hydrolases-like superfamily protein
Arabidopsis thaliana AT1G09740   adenine nucleotide alpha hydrolases-like protein
Arabidopsis thaliana AT3G11930   universal stress protein-like protein
Arabidopsis thaliana AT3G58450   adenine nucleotide alpha hydrolases-like superfamily protein
Dictyostelium discoideum DDB_G0286887   hypothetical protein
Dictyostelium discoideum DDB_G0292922   hypothetical protein
Dictyostelium discoideum DDB_G0270690   hypothetical protein
Dictyostelium discoideum DDB_G0274757   hypothetical protein
Dictyostelium discoideum DDB_G0268006   hypothetical protein
Echinococcus granulosus EgrG_000901800   universal stress protein in QAH:OAS
Echinococcus granulosus EgrG_000873800   universal stress protein
Echinococcus granulosus EgrG_000620600   universal stress protein in QAH:OAS
Echinococcus granulosus EgrG_002024800   universal stress protein
Echinococcus granulosus EgrG_002019000   universal stress protein
Echinococcus granulosus EgrG_000811100   universal stress protein
Echinococcus granulosus EgrG_000779700   universal stress protein
Echinococcus granulosus EgrG_000983900   universal stress protein
Echinococcus granulosus EgrG_000873500   universal stress protein
Echinococcus granulosus EgrG_000873600   universal stress protein
Echinococcus granulosus EgrG_000873400   universal stress protein
Echinococcus multilocularis EmuJ_000065300   universal stress protein
Echinococcus multilocularis EmuJ_000811100   universal stress protein
Echinococcus multilocularis EmuJ_000620600   universal stress protein in QAH:OAS
Echinococcus multilocularis EmuJ_000873500   universal stress protein
Echinococcus multilocularis EmuJ_000873800   universal stress protein
Echinococcus multilocularis EmuJ_000779700   universal stress protein
Echinococcus multilocularis EmuJ_000983900   universal stress protein
Echinococcus multilocularis EmuJ_000901800   universal stress protein in QAH:OAS
Echinococcus multilocularis EmuJ_000873600   universal stress protein
Echinococcus multilocularis EmuJ_000873400   universal stress protein
Mycobacterium leprae ML1390   IRON-REGULATED CONSERVED HYPOTHETICAL PROTEIN TB15.3 HOMOLOG
Mycobacterium tuberculosis Rv2319c   Universal stress protein family protein
Mycobacterium tuberculosis Rv1996   Universal stress protein family protein
Mycobacterium tuberculosis Rv2005c   Universal stress protein family protein
Mycobacterium tuberculosis Rv2026c   Universal stress protein family protein
Mycobacterium tuberculosis Rv2028c   Universal stress protein family protein
Mycobacterium tuberculosis Rv2624c   Universal stress protein family protein
Mycobacterium tuberculosis Rv1636   Iron-regulated universal stress protein family protein TB15.3
Mycobacterium tuberculosis Rv2623   Universal stress protein family protein TB31.7
Mycobacterium tuberculosis Rv3134c   Universal stress protein family protein
Mycobacterium ulcerans MUL_2424   hypothetical protein
Mycobacterium ulcerans MUL_0483   hypothetical protein
Mycobacterium ulcerans MUL_5033   hypothetical protein
Mycobacterium ulcerans MUL_2234   hypothetical protein
Mycobacterium ulcerans MUL_2236   hypothetical protein
Mycobacterium ulcerans MUL_1245   hypothetical protein
Mycobacterium ulcerans MUL_1619   iron-regulated protein
Mycobacterium ulcerans MUL_3267   hypothetical protein
Mycobacterium ulcerans MUL_0611   hypothetical protein
Oryza sativa 4334119   Os03g0750000
Oryza sativa 4332595   Os03g0305400
Oryza sativa 4330802   Os02g0760500
Oryza sativa 4324029   Os01g0511100
Oryza sativa 4348710   Os10g0437500
Schistosoma japonicum Sjp_0061560   IPR006015,Universal stress protein (Usp);IPR006016,UspA,domain-containing
Schistosoma japonicum Sjp_0211220   IPR006015,Universal stress protein (Usp);IPR006016,UspA,domain-containing
Schistosoma japonicum Sjp_0210600   IPR006015,Universal stress protein (Usp);IPR014729,Rossmann-like alpha/beta/alpha sandwich fold;IPR006016,UspA,domain-containing
Schistosoma mansoni Smp_001000   hypothetical protein
Schistosoma mansoni Smp_076400   Universal stress protein G
Schistosoma mansoni Smp_097930   universal stress protein
Schistosoma mansoni Smp_031300   universal stress protein
Schistosoma mansoni Smp_043120   universal stress protein
Schmidtea mediterranea mk4.000744.04   WGS project CABG00000000 data, supercontig 0549, strain Puerto Rico
Schmidtea mediterranea mk4.000574.08   Universal stress protein G, putative
Schmidtea mediterranea mk4.001879.01  

Essentiality

Rv1996 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu2028 this record Mycobacterium tuberculosis non-essential nmpdr
mtu2037 Mycobacterium tuberculosis non-essential nmpdr
mtu2058 Mycobacterium tuberculosis essential nmpdr
mtu2060 Mycobacterium tuberculosis non-essential nmpdr
mtu2670 Mycobacterium tuberculosis non-essential nmpdr
mtu3186 Mycobacterium tuberculosis non-essential nmpdr
mtu1664 Mycobacterium tuberculosis non-essential nmpdr
mtu2669 Mycobacterium tuberculosis essential nmpdr
Show/Hide essentiality data references
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection

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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User comments

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Gene identifier Rv1996 (Mycobacterium tuberculosis), Universal stress protein family protein
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