Rv3544c Probable acyl-CoA dehydrogenase FadE28 (EC 1.3.99.-); Acyl-CoA dehydrogenase IgrB

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3544c fadE28 Probable acyl-CoA dehydrogenase FadE28 (EC 1.3.99.-); Acyl-CoA dehydrogenase IgrB CDS 3983125 3984144 - 1 020 339 FALSE

Rv3544c (Probable acyl-CoA dehydrogenase FadE28 (EC 1.3.99.-); Acyl-CoA dehydrogenase IgrB) is predicted to be co-regulated in modules bicluster_0166 with residual 0.50 and bicluster_0200 with residual 0.45.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.00 for bicluster_0166 and 0.00 and 0.16 for bicluster_0200 respectively.

These modules are enriched for following go terms: coenzyme binding, oxidoreductase activity.

This gene is found to be 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
Transcriptional regulator, ArsR family
No -133 -0.26 0.146392 Internal.TSS
Motif 1 Motif 2 Residual
bicluster_0166
e.value: 
0.0000016
Motif Bicluster: 
e.value: 
0.004
Motif Bicluster: 
0.50
bicluster_0200
e.value: 
8.3e-28
Motif Bicluster: 
e.value: 
0.16
Motif Bicluster: 
0.45
Product (LegacyBRC) Product (RefSeq)
PROBABLE ACYL-CoA DEHYDROGENASE FADE28 acyl-CoA dehydrogenase FADE28
Operon # Operon
2312 - - - - -
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
15610680 NP_218061.1 Run
GO:0004085

butyryl-CoA dehydrogenase activity

butyryl-CoA dehydrogenase activity

Details: 
Catalysis of the reaction: butanoyl-CoA + electron-transfer flavoprotein = 2-butenoyl-CoA + reduced electron-transfer flavoprotein.
GO Category: 
molecular_function
7
Total items in this category:  
GO:0009268

response to pH

response to pH

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 a pH stimulus.
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:0044117

growth of symbiont in host

growth of symbiont in host

Details: 
The increase in size or mass of an organism, occurring within the cells or tissues of the host organism. This may (but not necessarily) include a filamentous growth form, and also can include secretion of proteases and lipases to break down host tissue. The host is defined as the larger of the organisms involved in a symbiotic interaction.
GO Category: 
biological_process
36
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
0.000000 0.01

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: