Rv3784 dTDP-glucose 4,6-dehydratase (EC 4.2.1.46)

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv3784 dTDP-glucose 4,6-dehydratase (EC 4.2.1.46) CDS 4230256 4231236 + 981 326 FALSE

Rv3784 (dTDP-glucose 4,6-dehydratase (EC 4.2.1.46)) is predicted to be co-regulated in modules bicluster_0041 with residual 0.83 and bicluster_0533 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 48.00 for bicluster_0041 and 12.00 and 60.00 for bicluster_0533 respectively.

These modules are enriched for following go terms: biosynthetic process, cellular amide metabolic process, monocarboxylic acid metabolic process, amide binding, amino acid binding, vitamin binding phosphate-containing compound metabolic ..., phosphorus metabolic process, organophosphate biosynthetic process, coenzyme biosynthetic process, cofactor biosynthetic process.

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, TetR family
No -66 -0.49 0.652851 CDS
Motif 1 Motif 2 Residual
bicluster_0041
e.value: 
0.00027
Motif Bicluster: 
e.value: 
48
Motif Bicluster: 
0.83
bicluster_0533
e.value: 
12
Motif Bicluster: 
e.value: 
60
Motif Bicluster: 
0.51
Product (LegacyBRC) Product (RefSeq)
POSSIBLE dTDP-GLUCOSE 46-DEHYDRATASE dTDP-glucose 4,6-dehydratase
Operon # Operon
2477
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Streptomycin biosynthesis

12
Total items in this category:  

KEGG

Polyketide sugar unit biosynthesis

6
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  

KEGG

Biosynthesis of secondary metabolites

326
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
57117156 YP_178015.1 Run
GO:0008460

dTDP-glucose 4,6-dehydratase activity

dTDP-glucose 4,6-dehydratase activity

Details: 
Catalysis of the reaction: dTDP-glucose = dTDP-4-dehydro-6-deoxy-alpha-D-glucose + H(2)O.
GO Category: 
molecular_function
2
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
0.010000 1.04

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: