Detailed view for Rv1296

Basic information

TDR Targets ID: 9966
Mycobacterium tuberculosis, Probable homoserine kinase ThrB
Source Database / ID:  Tuberculist 

pI: 4.7439 | Length (AA): 316 | MW (Da): 32346 | Paralog Number: 0

Signal peptide: Y | GPI Anchor: | Predicted trans-membrane segments: 0

Druggability Group : DG2

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

PF00288   GHMP kinases N terminal domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0016301   kinase activity  
GO:0005524   ATP binding  
GO:0004413   homoserine kinase activity  
GO:0016310   phosphorylation  
GO:0006566   threonine metabolic process  

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
4 308 6cyz (A) 2 305 54.00 0.0000000006 1 1.56519 -0.08
5 307 5wat (A) 3 303 50.00 0 1 1.55106 -0.44

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
Mid 40-60% percentile Dormant phase. hasan
Upregulation Percent Ranking Stage Dataset
Lower 0-20% percentile Dormant phase. murphy
Show/Hide expression data references
  • hasan Prioritizing genomic drug targets in pathogens: application to Mycobacterium tuberculosis.
  • murphy Identification of gene targets against dormant phase Mycobacterium tuberculosis infections.

Orthologs

Ortholog group members (OG5_129171)

Species Accession Gene Product
Arabidopsis thaliana AT2G17265   homoserine kinase
Candida albicans CaO19.923   likely homoserine kinase similar to S. cerevisiae THR1 (YHR025W) involved in methionine metabolism
Candida albicans CaO19.8539   homoserine kinase allele missing C terminal region and possessing N terminal extension
Escherichia coli b0003   homoserine kinase
Leishmania braziliensis LbrM.30.3070   homoserine kinase, putative
Leishmania donovani LdBPK_303120.1   homoserine kinase
Leishmania infantum LinJ.30.3120   homoserine kinase, putative
Leishmania major LmjF.30.3080   homoserine kinase, putative
Leishmania mexicana LmxM.29.3080   homoserine kinase, putative
Mycobacterium leprae ML1131   PROBABLE HOMOSERINE KINASE THRB
Mycobacterium tuberculosis Rv1296   Probable homoserine kinase ThrB
Mycobacterium ulcerans MUL_3968   homoserine kinase
Neospora caninum NCLIV_059630   homoserine kinase, putative
Oryza sativa 4331255   Os02g0831800
Saccharomyces cerevisiae YHR025W   homoserine kinase
Trypanosoma brucei Tb927.6.4430   homoserine kinase
Trypanosoma congolense TcIL3000_6_3840   homoserine kinase
Trypanosoma cruzi TcCLB.509167.150   homoserine kinase
Trypanosoma cruzi TcCLB.503597.10   homoserine kinase
Toxoplasma gondii TGME49_216640   GHMP kinase, putative

Essentiality

Rv1296 has direct evidence of essentiality
Gene/Ortholog Organism Phenotype Source Study
mtu1318 this record Mycobacterium tuberculosis essential nmpdr
Tb927.6.4430 Trypanosoma brucei no significant loss or gain of fitness in bloodstream forms (3 days) alsford
Tb927.6.4430 Trypanosoma brucei significant gain of fitness in bloodstream forms (6 days) alsford
Tb927.6.4430 Trypanosoma brucei no significant loss or gain of fitness in procyclic forms alsford
Tb927.6.4430 Trypanosoma brucei no significant loss or gain of fitness in differentiation of procyclic to bloodstream forms alsford
b0003 Escherichia coli non-essential goodall
TGME49_216640 Toxoplasma gondii Probably non-essential sidik
Show/Hide essentiality data references
  • 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
  • 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.
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • 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
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • 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.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • 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

1 literature reference was 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 Rv1296 (Mycobacterium tuberculosis), Probable homoserine kinase ThrB
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