Rv3339c Isocitrate dehydrogenase [NADP] (EC 1.1.1.42)

Summary

Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3339c icd1 Isocitrate dehydrogenase [NADP] (EC 1.1.1.42) CDS 3724615 3725844 - 1 230 409 FALSE

Rv3339c (Isocitrate dehydrogenase [NADP] (EC 1.1.1.42)) is predicted to be co-regulated in modules bicluster_0178 with residual 0.53 and bicluster_0422 with residual 0.52.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 140.00 and 36,000.00 for bicluster_0178 and 0.18 and 5,500.00 for bicluster_0422 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 15:27
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-17798 MT3442 28
Product (LegacyBRC) Product (RefSeq)
Isocitrate dehydrogenase [NADP] isocitrate dehydrogenase
Operon # Operon
2181
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Citrate cycle (TCA cycle)

35
Total items in this category:  

KEGG

Glutathione metabolism

14
Total items in this category:  

KEGG

Carbon fixation pathways in prokaryotes

42
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:  

KEGG

Microbial metabolism in diverse environments

296
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610475 NP_217856.1 Run
GO:0004450

isocitrate dehydrogenase (NADP+) activity

isocitrate dehydrogenase (NADP+) activity

Details: 
Catalysis of the reaction: isocitrate + NADP+ = 2-oxoglutarate + CO2 + NADPH + H+.
GO Category: 
molecular_function
1
Total items in this category:  
GO:0000287

magnesium ion binding

magnesium ion binding

Details: 
Interacting selectively and non-covalently with magnesium (Mg) ions.
GO Category: 
molecular_function
52
Total items in this category:  
GO:0004450

isocitrate dehydrogenase (NADP+) activity

isocitrate dehydrogenase (NADP+) activity

Details: 
Catalysis of the reaction: isocitrate + NADP+ = 2-oxoglutarate + CO2 + NADPH + H+.
GO Category: 
molecular_function
1
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:  
GO:0008270

zinc ion binding

zinc ion binding

Details: 
Interacting selectively and non-covalently with zinc (Zn) ions.
GO Category: 
molecular_function
15
Total items in this category:  
GO:0042803

protein homodimerization activity

protein homodimerization activity

Details: 
Interacting selectively and non-covalently with an identical protein to form a homodimer.
GO Category: 
molecular_function
83
Total items in this category:  
No TFOE experiment results were found

Quantitative Proteomics Data

t-test p-value Cholesterol/Glycerol Ratio
0.240000 1.22

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: