Rv3432c Glutamate decarboxylase (EC 4.1.1.15)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3432c gadB Glutamate decarboxylase (EC 4.1.1.15) CDS 3850372 3851754 - 1 383 460 FALSE

Rv3432c (Glutamate decarboxylase (EC 4.1.1.15)) is predicted to be co-regulated in modules bicluster_0351 with residual 0.53 and bicluster_0533 with residual 0.51.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.02 for bicluster_0351 and 12.00 and 60.00 for bicluster_0533 respectively.

These modules are enriched for following go terms: phosphate-containing compound metabolic ..., phosphorus metabolic process, organophosphate biosynthetic process, coenzyme biosynthetic process, cofactor biosynthetic process.

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 15:33
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-15069 MT3538 1308
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
No results were found
Motif 1 Motif 2 Residual
bicluster_0351
e.value: 
0.000064
Motif Bicluster: 
e.value: 
0.02
Motif Bicluster: 
0.53
bicluster_0533
e.value: 
12
Motif Bicluster: 
e.value: 
60
Motif Bicluster: 
0.51
Product (LegacyBRC) Product (RefSeq)
PROBABLE GLUTAMATE DECARBOXYLASE GADB glutamate decarboxylase GadB
Operon # Operon
2246 - - -
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Alanine, aspartate and glutamate metabolism

26
Total items in this category:  

KEGG

beta-Alanine metabolism

37
Total items in this category:  

KEGG

Taurine and hypotaurine metabolism

7
Total items in this category:  

KEGG

Butanoate metabolism

63
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  

KEGG

Biosynthesis of secondary metabolites

326
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610568 NP_217949.1 Run
Description:Expression data from transcription factor over expression experiments. TFOE are matched to the ChIP-seq experiment done simultaneously. This dataset is described in Rustad et al. 2014, Genome Biology.
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.070000 0.94

How essentiality calculations were done?

The relative representation of each mutant was determined by calculating the fold change (sequence reads/insertion in cholesterol divided by sequence reads/insertion in glycerol) for each gene. Statistical significance was determined by t-test. Each insertion site in each replicate sample was treated as a separate data point. The hyperbola used for defining genes specifically required for growth in cholesterol was defined by the formula, y = 3.8/x+0.7. Genes above this line are annotated as required for growth on cholesterol.

TRIP log2 fold abundance change

reports the log2 abundance fold change of each TFI strain, relative to no induction, in absence or presence of drug, averaged across experimental replicates. Also reported are the accompanying z-scores and two-sided t-test p-values for each TFI strain under each condition. Please refer to Ma et al., 2020, Nature Microbiology for more information.

p-value Untreated:
p-value INH: