Rv0467 Isocitrate lyase (EC 4.1.3.1) / Methylisocitrate lyase (EC 4.1.3.30)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0467 icl1 Isocitrate lyase (EC 4.1.3.1) / Methylisocitrate lyase (EC 4.1.3.30) CDS 557527 558813 + 1 287 428 FALSE

Rv0467 (Isocitrate lyase (EC 4.1.3.1) / Methylisocitrate lyase (EC 4.1.3.30)) is predicted to be co-regulated in modules bicluster_0475 with residual 0.40 and bicluster_0528 with residual 0.42.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 9.10 for bicluster_0475 and 0.00 and 47.00 for bicluster_0528 respectively.

These modules are enriched for following go terms: fatty acid synthase activity .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 02:57
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-15740 MT0483 2812
Product (LegacyBRC) Product (RefSeq)
Isocitrate lyase isocitrate lyase
Operon # Operon
313
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Glyoxylate and dicarboxylate metabolism

31
Total items in this category:  

KEGG

Metabolic pathways

601
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
57116734 YP_177728.1 Run
GO:0004451

isocitrate lyase activity

isocitrate lyase activity

Details: 
Catalysis of the reaction: isocitrate = glyoxylate + succinate.
GO Category: 
molecular_function
3
Total items in this category:  
GO:0001101

response to acid

response to acid

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an acid stimulus.
GO Category: 
biological_process
11
Total items in this category:  
GO:0004451

isocitrate lyase activity

isocitrate lyase activity

Details: 
Catalysis of the reaction: isocitrate = glyoxylate + succinate.
GO Category: 
molecular_function
3
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:  
GO:0006097

glyoxylate cycle

glyoxylate cycle

Details: 
A modification of the TCA cycle occurring in some plants and microorganisms, in which isocitrate is cleaved to glyoxylate and succinate. Glyoxylate can then react with acetyl-CoA to form malate.
GO Category: 
biological_process
2
Total items in this category:  
GO:0009405

pathogenesis

pathogenesis

Details: 
The set of specific processes that generate the ability of an organism to cause disease in another.
GO Category: 
biological_process
65
Total items in this category:  
GO:0010034

response to acetate

response to acetate

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an acetate stimulus.
GO Category: 
biological_process
1
Total items in this category:  
GO:0046421

methylisocitrate lyase activity

methylisocitrate lyase activity

Details: 
Catalysis of the reaction: (2S,3R)-3-hydroxybutane-1,2,3-tricarboxylate = pyruvate + succinate.
GO Category: 
molecular_function
2
Total items in this category:  
GO:0052572

response to host immune response

response to host immune response

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of detecting the immune response of the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.
GO Category: 
biological_process
62
Total items in this category:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.060000 0.09

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: