Rv0681 Transcriptional regulator, TetR family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0681 Transcriptional regulator, TetR family CDS 780721 781311 + 591 196 TRUE

Rv0681 (Transcriptional regulator, TetR family) is predicted to be co-regulated in modules bicluster_0239 with residual 0.41 and bicluster_0286 with residual 0.44.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 2,700.00 and 6,000.00 for bicluster_0239 and 4.30 and 5.80 for bicluster_0286 respectively.

These modules are enriched for following go terms: branched-chain amino acid biosynthetic p..., branched-chain amino acid metabolic proc..., cytosol, cytosolic part.

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 11/20/2020 - 12:11
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18238 MT0709 1821
Displaying 1 - 6 of 6
Gene Target Differential Expression Distance Expression pvalue Type
Induced 64 1.02 0.00000000703 Primary.TSS
PPE family protein
No -100 0.04 0.99889 Primary.TSS
Putative cytochrome P450 125 (EC 1.14.-.-); Putative cytochrome P450 IgrA
No 32 0.36 0.99889 CDS
Probable acetyl-CoA acetyltransferase FadA5 (EC 2.3.1.9)
No -80 0.66 0.582795 Primary.TSS
POSSIBLE OXIDOREDUCTASE
No 30 -0.12 0.99889 Primary.TSS
Phenylacetate-CoA oxygenase/reductase, PaaK subunit
No 60 0.64 0.159629 Primary.TSS
Product (LegacyBRC) Product (RefSeq)
PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN [POSSIBLY TETR-FAMILY] TetR family transcriptional regulator
Operon # Operon
456
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
15607821 NP_215195.1 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 GSM1426536 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426537 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426538 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426539 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0681_B353 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.510000 1.29

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: 0.986305
p-value INH: 0.988908
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 12.49 U
D3I 3 3 3.83 12.37 I
D3U 3 3 3.83 12.02 U
D5I 9 5 6.00 12.33 I
D5U 17 5 6.00 12.11 U
D7I 18 7 8.14 12.62 I
D7U 19 7 8.14 12.82 U
D14I 4 14 15.63 13.41 I
D14U 4 14 15.63 13.99 U
D17I 3 17 19.15 13.66 I
D17U 3 17 19.15 14.60 U
D21I 4 21 23.23 13.53 I
D21U 4 21 23.23 14.65 U
D24I 3 24 26.60 13.00 I
D24U 3 24 26.60 14.95 U
D28I 4 28 30.61 13.02 I
D28U 4 28 30.61 14.79 U