Detailed view for Rv3432c

Basic information

TDR Targets ID: 980326
Mycobacterium tuberculosis, Probable glutamate decarboxylase GadB
Source Database / ID:  Tuberculist 

pI: 5.4042 | Length (AA): 460 | MW (Da): 50748 | Paralog Number: 0

Signal peptide: N | 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

PF00282  

Gene Ontology

Mouse over links to read term descriptions.
GO:0030170   pyridoxal phosphate binding  
GO:0016831   carboxy-lyase activity  
GO:0004351   glutamate decarboxylase activity  
GO:0003824   catalytic activity  
GO:0019752   carboxylic acid metabolic process  
GO:0006536   glutamate 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
7 446 2dgm (A) 8 450 48.00 0 1 1.54362 -0.55
12 448 3hbx (A) 13 448 49.00 0 1 1.5803 -0.68

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

No expression data available for this gene

Orthologs

Ortholog group members (OG5_129592)

Species Accession Gene Product
Arabidopsis thaliana AT1G65960   glutamate decarboxylase 2
Arabidopsis thaliana AT2G02010   glutamate decarboxylase 4
Arabidopsis thaliana AT2G02000   glutamate decarboxylase 3
Arabidopsis thaliana AT5G17330   glutamate decarboxylase 1
Arabidopsis thaliana AT3G17760   glutamate decarboxylase 5
Candida albicans CaO19.1153   Glutamate decarboxylase
Candida albicans CaO19.8745   Glutamate decarboxylase
Dictyostelium discoideum DDB_G0288715   glutamate decarboxylase
Dictyostelium discoideum DDB_G0280199   glutamate decarboxylase
Escherichia coli b1493   glutamate decarboxylase B, PLP-dependent
Escherichia coli b3517   glutamate decarboxylase A, PLP-dependent
Mycobacterium tuberculosis Rv3432c   Probable glutamate decarboxylase GadB
Mycobacterium ulcerans MUL_0878   glutamate decarboxylase
Oryza sativa 4332184   Os03g0236200
Oryza sativa 4335977   Os04g0447800
Oryza sativa 4333932   Os03g0720300
Oryza sativa 4335973   Os04g0447400
Oryza sativa 4345787   Os08g0465800
Saccharomyces cerevisiae YMR250W   glutamate decarboxylase GAD1
Schmidtea mediterranea mk4.039579.00  
Trichomonas vaginalis TVAG_457250   group II pyridoxal-5-phosphate decarboxylase, putative

Essentiality

Rv3432c has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
b1493 Escherichia coli non-essential goodall
b3517 Escherichia coli non-essential goodall
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.
  • 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
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • 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
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • 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.
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930
  • 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

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.

User comments

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Gene identifier Rv3432c (Mycobacterium tuberculosis), Probable glutamate decarboxylase GadB
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