Rv2948c Long-chain fatty-acid-CoA ligase (EC 6.2.1.3), Mycobacterial subgroup FadD22

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv2948c fadD22 Long-chain fatty-acid-CoA ligase (EC 6.2.1.3), Mycobacterial subgroup FadD22 CDS 3297837 3299954 - 2 118 705 FALSE

Rv2948c (Long-chain fatty-acid-CoA ligase (EC 6.2.1.3), Mycobacterial subgroup FadD22) is predicted to be co-regulated in modules bicluster_0211 with residual 0.50 and bicluster_0490 with residual 0.57.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.05 for bicluster_0211 and 0.01 and 730.00 for bicluster_0490 respectively.

These modules are enriched for following go terms: translation, non-membrane-bounded organelle, intracellular non-membrane-bounded organ..., organelle, intracellular organelle, cytoplasmic part .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 14:41
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18020 MT3021 1135
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 9 of 9
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, MarR family
No -85 0.26 0.571795 CDS
Transcriptional regulator, TetR family
No 67 -0.05 0.947455 Antisense.TSS
Transcriptional regulator, TetR family
No -28 -0.05 0.947455 Internal.TSS
No -58 0.13 0.818175 Internal.TSS
Transcriptional regulatory protein
Repressed 20 -1.15 0.0000208 Antisense.TSS
No 37 0.13 0.818175 Antisense.TSS
Transcriptional regulatory protein
Repressed -75 -1.15 0.0000208 Internal.TSS
transcriptional regulator, ArsR family
No 13 0.39 0.0633769 Antisense.TSS
Histone protein Lsr2
No -125 -0.07 0.925641 Antisense.TSS
Motif 1 Motif 2 Residual
bicluster_0211
e.value: 
0.00000000024
Motif Bicluster: 
e.value: 
0.047
Motif Bicluster: 
0.50
bicluster_0490
e.value: 
0.0085
Motif Bicluster: 
e.value: 
730
Motif Bicluster: 
0.57
Product (LegacyBRC) Product (RefSeq)
PROBABLE FATTY-ACID-CoA LIGASE FADD22 [FATTY-ACID-CoA SYNTHETASE] [FATTY-ACID-CoA SYNTHASE] acyl-CoA synthetase
Operon # Operon
1921 - - - -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Long-chain-fatty-acid--CoA ligase Fatty acid metabolism
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
15610085 NP_217464.1 Run
GO:0009247

glycolipid biosynthetic process

glycolipid biosynthetic process

Details: 
The chemical reactions and pathways resulting in the formation of glycolipid, a class of 1,2-di-O-acylglycerols joined at oxygen 3 by a glycosidic linkage to a carbohydrate part (usually a mono-, di- or tri-saccharide).
GO Category: 
biological_process
17
Total items in this category:  
GO:0016874

ligase activity

ligase activity

Details: 
Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
GO Category: 
molecular_function
1
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
0.120000 1.30

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: