Rv2476c NAD-specific glutamate dehydrogenase (EC 1.4.1.2), large form

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv2476c gdh NAD-specific glutamate dehydrogenase (EC 1.4.1.2), large form CDS 2777388 2782262 - 4 875 1 624 FALSE

Rv2476c (NAD-specific glutamate dehydrogenase (EC 1.4.1.2), large form) is predicted to be co-regulated in modules bicluster_0083 with residual 0.52 and bicluster_0280 with residual 0.58.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 240.00 and 440.00 for bicluster_0083 and 5.00 and 20.00 for bicluster_0280 respectively.

These modules are enriched for following go terms: glutamine metabolic process .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 13:57
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-17844 MT2551 298
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_0083
e.value: 
240
Motif Bicluster: 
e.value: 
440
Motif Bicluster: 
0.52
bicluster_0280
e.value: 
5
Motif Bicluster: 
e.value: 
20
Motif Bicluster: 
0.58
Product (LegacyBRC) Product (RefSeq)
PROBABLE NAD-DEPENDENT GLUTAMATE DEHYDROGENASE GDH [NAD-GDH] [NAD-DEPENDENT GLUTAMIC DEHYDROGENASE] NAD-dependent glutamate dehydrogenase
Operon # Operon
1632 - -
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Alanine, aspartate and glutamate metabolism

26
Total items in this category:  

KEGG

Arginine and proline metabolism

38
Total items in this category:  

KEGG

Nitrogen metabolism

24
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15609613 NP_216992.1 Run
GO:0004354

glutamate dehydrogenase (NADP+) activity

glutamate dehydrogenase (NADP+) activity

Details: 
Catalysis of the reaction: L-glutamate + H2O + NADP+ = 2-oxoglutarate + NH3 + NADPH + H+.
GO Category: 
molecular_function
1
Total items in this category:  
GO:0005515

protein binding

protein binding

Details: 
Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
GO Category: 
molecular_function
135
Total items in this category:  
GO:0005618

cell wall

cell wall

Details: 
The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan.
GO Category: 
cellular_component
320
Total items in this category:  
GO:0005829

cytosol

cytosol

Details: 
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
GO Category: 
cellular_component
371
Total items in this category:  
GO:0005886

plasma membrane

plasma membrane

Details: 
The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
GO Category: 
cellular_component
1284
Total items in this category:  
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 0.04

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: