Rv0452 Transcriptional regulator, TetR family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0452 Transcriptional regulator, TetR family CDS 542142 542852 + 711 236 FALSE

Rv0452 (Transcriptional regulator, TetR family) is predicted to be co-regulated in modules bicluster_0038 with residual 0.42 and bicluster_0049 with residual 0.59.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 5,200.00 and 7,700.00 for bicluster_0038 and 0.00 and 0.01 for bicluster_0049 respectively.

These modules are enriched for following go terms: .

This gene is found to be non-essential for growth on cholesterol.

Mutant available?:

BASS Score Distance to Tuberculist Start Codon Internal TSS Re-Annotated Start Tuberculist Annotated Start
-0.008 18 542160 542160 542142
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 7 of 7
ChipSeq TF Differential Expression Distance Expression pvalue Type
cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases
No -52 0.36 0.780321 CDS
Organic hydroperoxide resistance transcriptional regulator
No -77 0.08 0.937629 Internal.TSS
No -39 0.29 0.634165 CDS
cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases
No -70 0.36 0.780321 Internal.TSS
Transcriptional regulator, TetR family
No -100 -0.19 0.830924 Internal.TSS
Organic hydroperoxide resistance transcriptional regulator
No -59 0.08 0.937629 CDS
Transcriptional regulator, TetR family
No -82 -0.19 0.830924 CDS
Motif 1 Motif 2 Residual
bicluster_0038
e.value: 
5200
Motif Bicluster: 
e.value: 
7700
Motif Bicluster: 
0.42
bicluster_0049
e.value: 
0.0000000036
Motif Bicluster: 
e.value: 
0.014
Motif Bicluster: 
0.59
Product (LegacyBRC) Product (RefSeq)
POSSIBLE TRANSCRIPTIONAL REGULATORY PROTEIN transcriptional regulatory protein
Operon # Operon
301 Rv0452
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
15607593 NP_214966.1 Run
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 GSM1426480 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426481 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426482 GSE59086 25232098 GEO Tiling Array RNA
Quantitative Proteomics Data
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
non-essential 0.240000 1.14

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.

Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 8.19 U
D3I 3 3 3.83 7.86 I
D3U 3 3 3.83 7.64 U
D5I 9 5 6.00 8.75 I
D5U 17 5 6.00 8.45 U
D7I 18 7 8.14 8.12 I
D7U 19 7 8.14 7.37 U
D14I 4 14 15.63 6.26 I
D14U 4 14 15.63 5.66 U
D17I 3 17 19.15 6.89 I
D17U 3 17 19.15 6.06 U
D21I 4 21 23.23 6.20 I
D21U 4 21 23.23 5.31 U
D24I 3 24 26.60 6.81 I
D24U 3 24 26.60 5.56 U
D28I 4 28 30.61 6.06 I
D28U 4 28 30.61 5.50 U