Rv2987c 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv2987c leuD 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) CDS 3344033 3344629 - 597 198 FALSE

Rv2987c (3-isopropylmalate dehydratase small subunit (EC 4.2.1.33)) is predicted to be co-regulated in modules bicluster_0286 with residual 0.44 and bicluster_0344 with residual 0.49.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 4.30 and 5.80 for bicluster_0286 and 0.10 and 8.00 for bicluster_0344 respectively.

These modules are enriched for following go terms: branched-chain amino acid biosynthetic p..., branched-chain amino acid metabolic proc..., cytosol, cytosolic part .

This gene is found to be non-essential for growth on cholesterol.

Mutant available?:

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
DNA-binding response regulator TrcR
No 2 -0.78 0.535224 CDS
Motif 1 Motif 2 Residual
bicluster_0286
e.value: 
4.3
Motif Bicluster: 
e.value: 
5.8
Motif Bicluster: 
0.44
bicluster_0344
e.value: 
0.1
Motif Bicluster: 
e.value: 
8
Motif Bicluster: 
0.49
Product (LegacyBRC) Product (RefSeq)
3-isopropylmalate dehydratase small subunit isopropylmalate isomerase small subunit
Operon # Operon
1950 Rv2987c - Rv2988c
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

3-isopropylmalate dehydratase Valine, leucine and isoleucine biosynthesis
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Valine, leucine and isoleucine biosynthesis

21
Total items in this category:  

KEGG

C5-Branched dibasic acid metabolism

9
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
15610124 NP_217503.1 Run
GO:0003861

3-isopropylmalate dehydratase activity

3-isopropylmalate dehydratase activity

Details: 
Catalysis of the reaction: 3-isopropylmalate = 2-isopropylmaleate + H2O.
GO Category: 
molecular_function
2
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:0009098

leucine biosynthetic process

leucine biosynthetic process

Details: 
The chemical reactions and pathways resulting in the formation of leucine, 2-amino-4-methylpentanoic acid.
GO Category: 
biological_process
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:  
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
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
non-essential 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.