Rv0903c DNA-binding response regulator

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0903c prrA DNA-binding response regulator CDS 1005852 1006562 - 711 236 FALSE

Rv0903c (DNA-binding response regulator) is predicted to be co-regulated in modules bicluster_0098 with residual 0.64 and bicluster_0314 with residual 0.57.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.00 for bicluster_0098 and 0.00 and 0.00 for bicluster_0314 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score Distance to Tuberculist Start Codon Internal TSS Re-Annotated Start Tuberculist Annotated Start
-0.266 9 1006553 1006553 1006562
Product (LegacyBRC) Product (RefSeq)
Transcriptional regulatory protein prrA two component response transcriptional regulatory protein PRRA
Operon # Operon
604 -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Two-component system

53
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15608043 NP_215418.1 Run
GO:0008150

biological_process

biological_process

Details: 
Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
GO Category: 
biological_process
66
Total items in this category:  
GO:0008150

biological_process

biological_process

Details: 
Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
GO Category: 
biological_process
66
Total items in this category:  
GO:0000287

magnesium ion binding

magnesium ion binding

Details: 
Interacting selectively and non-covalently with magnesium (Mg) ions.
GO Category: 
molecular_function
52
Total items in this category:  
GO:0005509

calcium ion binding

calcium ion binding

Details: 
Interacting selectively and non-covalently with calcium ions (Ca2+).
GO Category: 
molecular_function
3
Total items in this category:  
GO:0005829

cytosol

cytosol

Details: 
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
GO Category: 
cellular_component
371
Total items in this category:  
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:  
GO:0044110

growth involved in symbiotic interaction

growth involved in symbiotic interaction

Details: 
The increase in size or mass of an organism occurring when the organism is in a symbiotic interaction.
GO Category: 
biological_process
5
Total items in this category:  
GO:0052572

response to host immune response

response to host immune response

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of detecting the immune response of the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.
GO Category: 
biological_process
62
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 GSM1426590 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426591 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426592 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0903c_B433 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
NA NA

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: 0.0092393
p-value INH: 0.988908
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 13.69 U
D3I 3 3 3.83 13.49 I
D3U 3 3 3.83 13.43 U
D5I 9 5 6.00 14.17 I
D5U 17 5 6.00 14.06 U
D7I 18 7 8.14 13.39 I
D7U 19 7 8.14 12.83 U
D14I 4 14 15.63 11.43 I
D14U 4 14 15.63 11.58 U
D17I 3 17 19.15 10.44 I
D17U 3 17 19.15 10.92 U
D21I 4 21 23.23 10.42 I
D21U 4 21 23.23 11.18 U
D24I 3 24 26.60 9.03 I
D24U 3 24 26.60 10.37 U
D28I 4 28 30.61 9.06 I
D28U 4 28 30.61 10.71 U