Rv0821c Phosphate transport system regulatory protein PhoU

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0821c phoY2 Phosphate transport system regulatory protein PhoU CDS 913558 914199 - 642 213 TRUE

Rv0821c (Phosphate transport system regulatory protein PhoU) is predicted to be co-regulated in modules bicluster_0154 with residual 0.56 and bicluster_0526 with residual 0.56.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 6.50 and 19,000.00 for bicluster_0154 and 450.00 and 8,100.00 for bicluster_0526 respectively.

These modules are enriched for following go terms: nitrate reductase complex, nitrate reductase activity, oxidoreductase activity, acting on other... RNA binding.

This gene is found to be for growth on cholesterol.

Mutant available?:

Product (LegacyBRC) Product (RefSeq)
Phosphate transport system protein phoU homolog 2 phosphate transport regulator
Operon # Operon
543
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
15607961 NP_215336.1 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 GSM1426567 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426568 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426569 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0821c_B356 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.730000 0.84

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: 0.00145768
p-value INH: 0.832328
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 12.16 U
D3I 3 3 3.83 12.15 I
D3U 3 3 3.83 11.60 U
D5I 9 5 6.00 11.77 I
D5U 17 5 6.00 11.45 U
D7I 18 7 8.14 12.72 I
D7U 19 7 8.14 11.71 U
D14I 4 14 15.63 11.52 I
D14U 4 14 15.63 10.36 U
D17U 3 17 19.15 10.05 U
D17I 3 17 19.15 11.63 I
D21I 4 21 23.23 11.60 I
D21U 4 21 23.23 10.19 U
D24I 3 24 26.60 11.37 I
D24U 3 24 26.60 9.56 U
D28I 4 28 30.61 11.41 I
D28U 4 28 30.61 9.82 U