Rv3107c Alkyldihydroxyacetonephosphate synthase (EC 2.5.1.26)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3107c agpS Alkyldihydroxyacetonephosphate synthase (EC 2.5.1.26) CDS 3475378 3476961 - 1 584 527 FALSE

Rv3107c (Alkyldihydroxyacetonephosphate synthase (EC 2.5.1.26)) is predicted to be co-regulated in modules bicluster_0091 with residual 0.52 and bicluster_0450 with residual 0.52.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 12.00 for bicluster_0091 and 0.02 and 190.00 for bicluster_0450 respectively.

These modules are enriched for following go terms: .

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
No results were found
Motif 1 Motif 2 Residual
bicluster_0091
e.value: 
0.00016
Motif Bicluster: 
e.value: 
12
Motif Bicluster: 
0.52
bicluster_0450
e.value: 
0.019
Motif Bicluster: 
e.value: 
190
Motif Bicluster: 
0.52
Product (LegacyBRC) Product (RefSeq)
POSSIBLE ALKYLDIHYDROXYACETONEPHOSPHATE SYNTHASE AGPS [ALKYL-DHAP SYNTHASE] [ALKYLGLYCERONE-PHOSPHATE SYNTHASE] alkyldihydroxyacetonephosphate synthase AgpS
Operon # Operon
2031
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Alkylglycerone-phosphate synthase Ether lipid metabolism
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Ether lipid metabolism

7
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610244 NP_217623.1 Run
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
0.110000 1.20

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: