Rv2374c Heat-inducible transcription repressor HrcA

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv2374c hrcA Heat-inducible transcription repressor HrcA CDS 2654062 2655093 - 1 032 343 TRUE

Rv2374c (Heat-inducible transcription repressor HrcA) is predicted to be co-regulated in modules bicluster_0304 with residual 0.58 and bicluster_0335 with residual 0.58.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.36 and 78.00 for bicluster_0304 and 57.00 and 1,600.00 for bicluster_0335 respectively.

These modules are enriched for following go terms: cellular ketone metabolic process .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 11/20/2020 - 12:12
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-13644 MT2443 412
Displaying 1 - 5 of 5
Gene Target Differential Expression Distance Expression pvalue Type
No -113 0.06 0.952302 Primary.TSS
Type I antifreeze protein
Induced 7 1.33 0.0367434 Primary.TSS
Polyketide synthase
No -41 0.32 0.375229 Primary.TSS
Type VII secretion integral membrane protein EccD
No -65 0.2 0.150214 Primary.TSS
Heat shock protein 60 family co-chaperone GroES
No 13 0.43 0.727294 Primary.TSS
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, ArsR family
No -113 0.07 0.576125 Primary.TSS
Product (LegacyBRC) Product (RefSeq)
Heat-inducible transcription repressor hrcA heat-inducible transcription repressor
Operon # Operon
1567
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
15609511 NP_216890.1 Run
GO:0005622

intracellular

intracellular

Details: 
The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
GO Category: 
cellular_component
65
Total items in this category:  
GO:0003700

sequence-specific DNA binding transcription factor activity

sequence-specific DNA binding transcription factor activity

Details: 
Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
GO Category: 
molecular_function
17
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:0045892

negative regulation of transcription, DNA-dependent

negative regulation of transcription, DNA-dependent

Details: 
Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-dependent transcription.
GO Category: 
biological_process
10
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 GSM1426824 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426825 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426826 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426824 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426825 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426826 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv2374c_B290 UCSC Browser Tracks
Rv2374c_B362 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.590000 4.42

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: 0.361302
p-value INH: 0.988908
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 15.11 U
D3I 3 3 3.83 15.00 I
D3U 3 3 3.83 14.95 U
D5I 9 5 6.00 14.22 I
D5U 17 5 6.00 14.44 U
D7I 18 7 8.14 14.82 I
D7U 19 7 8.14 15.11 U
D14I 4 14 15.63 14.04 I
D14U 4 14 15.63 15.28 U
D17I 3 17 19.15 12.68 I
D17U 3 17 19.15 15.20 U
D21I 4 21 23.23 12.45 I
D21U 4 21 23.23 15.28 U
D24I 3 24 26.60 10.94 I
D24U 3 24 26.60 15.12 U
D28I 4 28 30.61 10.96 I
D28U 4 28 30.61 14.93 U