Rv3055 Transcriptional regulator, TetR family

Product Feature Type Start End Strand Length AA Length is TF
Rv3055 Transcriptional regulator, TetR family CDS 3416081 3416695 + 615 204 FALSE

Rv3055 (Transcriptional regulator, TetR family) is predicted to be co-regulated in modules bicluster_0373 with residual 0.51 and bicluster_0498 with residual 0.51.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.07 and 0.47 for bicluster_0373 and 0.00 and 6.30 for bicluster_0498 respectively.

These modules are enriched for following go terms: .

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-18884 MT3141 3245
Product (LegacyBRC) Product (RefSeq)
Operon # Operon
2000 -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics


Not assigned Not assigned
Locus Tuberculist Genome View


Locus Tag KEGG Pathways


not assigned to any KEGG Pathway.
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network


GI Number Protein ID Blast Conserved Domains
15610192 NP_217571.1 Run

plasma membrane

plasma membrane

The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
GO Category: 
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 GSM1426898 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426899 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426900 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv3055_B632 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.150000 0.33

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: 0.000354572
p-value INH: 0.988908
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 10.26 U
D3I 3 3 3.83 10.02 I
D3U 3 3 3.83 9.87 U
D5I 9 5 6.00 14.89 I
D5U 17 5 6.00 14.54 U
D7I 18 7 8.14 10.50 I
D7U 19 7 8.14 9.65 U
D14I 4 14 15.63 9.55 I
D14U 4 14 15.63 9.52 U
D17I 3 17 19.15 9.06 I
D17U 3 17 19.15 9.11 U
D21I 4 21 23.23 9.35 I
D21U 4 21 23.23 9.75 U
D24I 3 24 26.60 8.74 I
D24U 3 24 26.60 9.23 U
D28I 4 28 30.61 8.98 I
D28U 4 28 30.61 9.93 U