Rv3082c Transcriptional regulator, AraC family

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3082c virS Transcriptional regulator, AraC family CDS 3447404 3448426 - 1 023 340 TRUE

Rv3082c (Transcriptional regulator, AraC family) is predicted to be co-regulated in modules bicluster_0062 with residual 0.51 and bicluster_0245 with residual 0.51.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 18.00 and 490.00 for bicluster_0062 and 0.15 and 240.00 for bicluster_0245 respectively.

These modules are enriched for following go terms: oxidoreductase activity.

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 11/20/2020 - 12:12
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-17967 MT3167 1026
Product (LegacyBRC) Product (RefSeq)
Putative virulence-regulating 38 kDa protein virulence-regulating transcriptional regulator VirS
Operon # Operon
2020
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

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
15610219 NP_217598.1 Run
GO:0005829

cytosol

cytosol

Details: 
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
GO Category: 
cellular_component
371
Total items in this category:  
GO:0045893

positive regulation of transcription, DNA-dependent

positive regulation of transcription, DNA-dependent

Details: 
Any process that activates or increases the frequency, rate or extent of cellular DNA-dependent transcription.
GO Category: 
biological_process
14
Total items in this category:  
GO:0071468

cellular response to acidity

cellular response to acidity

Details: 
Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a pH stimulus with pH < 7.
GO Category: 
biological_process
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.
BioProject Accession GEO Series References Repository Sample Method Sample Type
PRJNA254351 GSM1426913 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426914 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426915 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv3082c_B634 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.440000 1.62

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: 0.361654
p-value INH: 0.988908
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 11.29 U
D3I 3 3 3.83 10.59 I
D3U 3 3 3.83 10.38 U
D5I 9 5 6.00 13.45 I
D5U 17 5 6.00 13.21 U
D7I 18 7 8.14 11.10 I
D7U 19 7 8.14 10.61 U
D14I 4 14 15.63 9.03 I
D14U 4 14 15.63 9.49 U
D17I 3 17 19.15 8.30 I
D17U 3 17 19.15 9.24 U
D21I 4 21 23.23 7.84 I
D21U 4 21 23.23 9.30 U
D24I 3 24 26.60 7.38 I
D24U 3 24 26.60 8.72 U
D28I 4 28 30.61 7.19 I
D28U 4 28 30.61 9.12 U