Rv3564 Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3564 fadE33 Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2) CDS 4005247 4006203 + 957 318 FALSE

Rv3564 (Acyl-CoA dehydrogenase, short-chain specific (EC 1.3.99.2)) is predicted to be co-regulated in modules bicluster_0152 with residual 0.50 and bicluster_0181 with residual 0.51.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.09 for bicluster_0152 and 0.00 and 88.00 for bicluster_0181 respectively.

These modules are enriched for following go terms: oxidoreductase activity, acting on the C..., flavin adenine dinucleotide binding.

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

BASS Score Re-Annotated Start Tuberculist Annotated Start
-0.482 4005271 4005247
Last update: 10/16/2017 - 15:33
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18479 MT3669 2362
Product (LegacyBRC) Product (RefSeq)
PROBABLE ACYL-CoA DEHYDROGENASE FADE33 acyl-CoA dehydrogenase FADE33
Operon # Operon
2323 - - - -
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
15610700 NP_218081.1 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: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:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.020000 0.02

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: