Rv3408

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3408 vapC47 CDS 3826548 3826958 + 411 136 FALSE

Rv3408 () is predicted to be co-regulated in modules bicluster_0087 with residual 0.55 and bicluster_0276 with residual 0.47.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 590.00 and 1,300.00 for bicluster_0087 and 93.00 and 170.00 for bicluster_0276 respectively.

These modules are enriched for following go terms: drug transmembrane transporter activity, drug transporter activity.

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-18458 MT3516 2741
Product (LegacyBRC) Product (RefSeq)
Uncharacterized protein Rv3408_MT3516
Operon # Operon
2229 - -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics
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
15610544 NP_217925.1 Run
GO:0017148

negative regulation of translation

negative regulation of translation

Details: 
Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA.
GO Category: 
biological_process
5
Total items in this category:  
GO:0045926

negative regulation of growth

negative regulation of growth

Details: 
Any process that stops, prevents or reduces the rate or extent of growth, the increase in size or mass of all or part of an organism.
GO Category: 
biological_process
36
Total items in this category:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.770000 1.27

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: