Rv0972c Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0972c fadE12 Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2) CDS 1082584 1083750 - 1 167 388 FALSE

Rv0972c (Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2)) is predicted to be co-regulated in modules bicluster_0394 with residual 0.56 and bicluster_0535 with residual 0.57.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 26.00 and 340.00 for bicluster_0394 and 11.00 and 3,000.00 for bicluster_0535 respectively.

These modules are enriched for following go terms: cellular protein metabolic process, macromolecular complex, cytoplasmic 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
No results were found
Motif 1 Motif 2 Residual
bicluster_0394
e.value: 
26
Motif Bicluster: 
e.value: 
340
Motif Bicluster: 
0.56
bicluster_0535
e.value: 
11
Motif Bicluster: 
e.value: 
3000
Motif Bicluster: 
0.57
Product (LegacyBRC) Product (RefSeq)
Acyl-CoA dehydrogenase fadE12 acyl-CoA dehydrogenase FADE12
Operon # Operon
649 Rv0971c - Rv0972c - Rv0973c - Rv0974c - Rv0975c - Rv0976c
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Geraniol degradation

52
Total items in this category:  

KEGG

Naphthalene degradation

40
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
15608112 NP_215487.1 Run
GO:0008470

isovaleryl-CoA dehydrogenase activity

isovaleryl-CoA dehydrogenase activity

Details: 
Catalysis of the reaction: 3-methylbutanoyl-CoA + ETF = 3-methylbut-2-enoyl-CoA + reduced ETF.
GO Category: 
molecular_function
3
Total items in this category:  
GO:0003995

acyl-CoA dehydrogenase activity

acyl-CoA dehydrogenase activity

Details: 
Catalysis of the reaction: acyl-CoA + acceptor = 2,3-dehydroacyl-CoA + reduced acceptor.
GO Category: 
molecular_function
8
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:0055114

oxidation-reduction process

oxidation-reduction process

Details: 
A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
GO Category: 
biological_process
19
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 0.370000 1.21

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.