Rv3710 2-isopropylmalate synthase (EC 2.3.3.13)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3710 leuA 2-isopropylmalate synthase (EC 2.3.3.13) CDS 4153860 4155674 + 1 815 604 FALSE

Rv3710 (2-isopropylmalate synthase (EC 2.3.3.13)) is predicted to be co-regulated in modules bicluster_0142 with residual 0.59 and bicluster_0284 with residual 0.42.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 420.00 and 7,300.00 for bicluster_0142 and 2,400.00 and 7,700.00 for bicluster_0284 respectively.

These modules are enriched for following go terms: DNA topological change, glutamate metabolic process, dicarboxylic acid biosynthetic process, DNA conformation change, DNA topoisomerase activity .

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score New Primary UTR Primary TSS Re-Annotated Start Tuberculist Annotated Start
-0.975 2 4153618 4153620 4153740
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 2 of 2
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, AraC family
No -14 -0.51 0.0141711 Primary.TSS
Transcriptional regulator, TetR family
Repressed -8 -1.63 2.98e-30 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0142
e.value: 
420
Motif Bicluster: 
e.value: 
7300
Motif Bicluster: 
0.59
bicluster_0284
e.value: 
2400
Motif Bicluster: 
e.value: 
7700
Motif Bicluster: 
0.42
Product (LegacyBRC) Product (RefSeq)
2-isopropylmalate synthase 2-isopropylmalate synthase
Operon # Operon
2418
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Valine, leucine and isoleucine biosynthesis

21
Total items in this category:  

KEGG

Pyruvate metabolism

40
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
161352459 NP_218227.2 Run
GO:0003852

2-isopropylmalate synthase activity

2-isopropylmalate synthase activity

Details: 
Catalysis of the reaction: 3-methyl-2-oxobutanoate + acetyl-CoA + H(2)O = (2S)-2-isopropylmalate + CoA + 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:0005576

extracellular region

extracellular region

Details: 
The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
GO Category: 
cellular_component
272
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:0030145

manganese ion binding

manganese ion binding

Details: 
Interacting selectively and non-covalently with manganese (Mn) ions.
GO Category: 
molecular_function
31
Total items in this category:  
GO:0030955

potassium ion binding

potassium ion binding

Details: 
Interacting selectively and non-covalently with potassium (K+) ions.
GO Category: 
molecular_function
1
Total items in this category:  
GO:0040007

growth

growth

Details: 
The increase in size or mass of an entire organism, a part of an organism or a cell.
GO Category: 
biological_process
621
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:  
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
NA NA

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: