Rv3801c Long-chain fatty-acid-AMP ligase, Mycobacterial subgroup FadD32

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3801c fadD32 Long-chain fatty-acid-AMP ligase, Mycobacterial subgroup FadD32 CDS 4261153 4263066 - 1 914 637 FALSE

Rv3801c (Long-chain fatty-acid-AMP ligase, Mycobacterial subgroup FadD32) is predicted to be co-regulated in modules bicluster_0369 with residual 0.51 and bicluster_0402 with residual 0.39.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 5.10 and 230.00 for bicluster_0369 and 0.00 and 650.00 for bicluster_0402 respectively.

These modules are enriched for following go terms: lipid biosynthetic process, lipid metabolic process, transferase activity, methyltransferase activity .

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score Distance to Tuberculist Start Codon Internal TSS New Internal UTR New Primary UTR Primary TSS Re-Annotated Start Tuberculist Annotated Start
-1.926 68 4262998 -44 202 4263244 4263042 4263066
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
DNA-binding response regulator TrcR
No -82 -0.15 0.653616 Primary.TSS
No -35 0 0.99365 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0369
e.value: 
5.1
Motif Bicluster: 
e.value: 
230
Motif Bicluster: 
0.51
bicluster_0402
e.value: 
0.0017
Motif Bicluster: 
e.value: 
650
Motif Bicluster: 
0.39
Product (LegacyBRC) Product (RefSeq)
PROBABLE FATTY-ACID-CoA LIGASE FADD32 [FATTY-ACID-CoA SYNTHETASE] [FATTY-ACID-CoA SYNTHASE] acyl-CoA synthetase
Operon # Operon
2486 - -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

not assigned to any KEGG Pathway.
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610937 NP_218318.1 Run
GO:0004467

long-chain fatty acid-CoA ligase activity

long-chain fatty acid-CoA ligase activity

Details: 
Catalysis of the reaction: ATP + a long-chain carboxylic acid + CoA = AMP + diphosphate + an acyl-CoA; a long-chain fatty acid is a fatty acid with a chain length between C13 and C22.
GO Category: 
molecular_function
13
Total items in this category:  
GO:0005618

cell wall

cell wall

Details: 
The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan.
GO Category: 
cellular_component
320
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: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:0070566

adenylyltransferase activity

adenylyltransferase activity

Details: 
Catalysis of the transfer of an adenylyl group to an acceptor.
GO Category: 
molecular_function
6
Total items in this category:  
GO:0071769

mycolate cell wall layer assembly

mycolate cell wall layer assembly

Details: 
The aggregation, arrangement and bonding together of a set of components, including arabinogalactan mycolate and trehalose dimycolate, to form the mycolate layer of the Actinobacterium-type cell wall. The mycolate layer is physically attached to the peptidoglycan layer.
GO Category: 
biological_process
6
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: