Rv3509c COG0028: Thiamine pyrophosphate-requiring enzymes

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3509c ilvX COG0028: Thiamine pyrophosphate-requiring enzymes CDS 3936877 3938424 - 1 548 515 FALSE

Rv3509c (COG0028: Thiamine pyrophosphate-requiring enzymes) is predicted to be co-regulated in modules bicluster_0148 with residual 0.49 and bicluster_0292 with residual 0.50.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 58.00 and 100.00 for bicluster_0148 and 0.00 and 0.03 for bicluster_0292 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 15:33
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18239 MT3613 1824
Product (LegacyBRC) Product (RefSeq)
PROBABLE ACETOHYDROXYACID SYNTHASE ILVX [ACETOLACTATE SYNTHASE]
Operon # Operon
2291 -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Valine, leucine and isoleucine biosynthesis

21
Total items in this category:  

KEGG

Butanoate metabolism

63
Total items in this category:  

KEGG

C5-Branched dibasic acid metabolism

9
Total items in this category:  

KEGG

Pantothenate and CoA biosynthesis

18
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
15610645 NP_218026.1 Run
GO:0005576

extracellular region

extracellular region

Details: 
The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
GO Category: 
cellular_component
272
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:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.500000 1.55

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: