Rv0275c Transcriptional regulator, TetR family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0275c Transcriptional regulator, TetR family CDS 330933 331658 - 726 241 TRUE

Rv0275c (Transcriptional regulator, TetR family) is predicted to be co-regulated in modules bicluster_0076 with residual 0.53 and bicluster_0560 with residual 0.59.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 3.40 for bicluster_0076 and 0.01 and 21.00 for bicluster_0560 respectively.

These modules are enriched for following go terms: folic acid-containing compound biosynthe..., pteridine-containing compound biosynthet..., coenzyme metabolic process, cellular modified amino acid biosyntheti....

This gene is found to be for growth on cholesterol.

Mutant available?:

Displaying 1 - 6 of 6
Gene Target Differential Expression Distance Expression pvalue Type
Transcriptional regulator, TetR family
Induced 29 2.33 4.12e-31 Primary.TSS
Repressed 17 -3.17 5.84e-39 Primary.TSS
Similar to methyltransferase domain of sarcosine-dimethylglycine methyltransferase
Repressed -67 -1.8 0.00000295 CDS
Transcriptional regulator, TetR family
No -54 -0.16 0.902849 Primary.TSS
No 6 -0.27 0.823571 Primary.TSS
PE family protein
No 32 -0.58 0.118503 Primary.TSS
Displaying 1 - 3 of 3
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, PadR family
No 0 0.18 0.962221 Primary.TSS
Transcriptional regulator, TetR family
No -20 -0.52 0.0649081 Primary.TSS
Transcriptional regulator, TetR family
Induced 29 2.33 4.12e-31 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0076
e.value: 
0.0023
Motif Bicluster: 
e.value: 
3.4
Motif Bicluster: 
0.53
bicluster_0560
e.value: 
0.014
Motif Bicluster: 
e.value: 
21
Motif Bicluster: 
0.59
Product (LegacyBRC) Product (RefSeq)
POSSIBLE TRANSCRIPTIONAL REGULATORY PROTEIN [POSSIBLY TETR-FAMILY] TetR family transcriptional regulator
Operon # Operon
190
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
57116711 YP_177706.1 Run
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:  
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 GSM1426446 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426447 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426448 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0275c_B410 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.600000 2.50

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:
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 5.71 U
D3I 3 3 3.83 I
D3U 3 3 3.83 U
D5I 9 5 6.00 I
D5U 17 5 6.00 U
D7I 18 7 8.14 6.43 I
D7U 19 7 8.14 5.43 U
D14I 4 14 15.63 2.71 I
D14U 4 14 15.63 1.54 U
D17I 3 17 19.15 2.30 I
D17U 3 17 19.15 3.11 U
D21I 4 21 23.23 I
D21U 4 21 23.23 U
D24I 3 24 26.60 1.96 I
D24U 3 24 26.60 2.22 U
D28I 4 28 30.61 2.00 I
D28U 4 28 30.61 1.90 U