Rv0576 Transcriptional regulator, ArsR family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0576 Transcriptional regulator, ArsR family CDS 669848 671152 + 1 305 434 TRUE

Rv0576 (Transcriptional regulator, ArsR family) is predicted to be co-regulated in modules bicluster_0464 with residual 0.52 and bicluster_0530 with residual 0.56.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.03 and 2.20 for bicluster_0464 and 0.00 and 0.46 for bicluster_0530 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

Displaying 1 - 10 of 34
Gene Target Differential Expression Distance Expression pvalue Type
No -25 -0.01 0.973639 CDS
Predicted regulator PutR for proline utilization, GntR family
No 48 -0.53 0.399481 Primary.TSS
Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3)
Repressed 62 -1.07 0.00810876 Primary.TSS
TetR/ACRR family transcriptional regulator
Repressed -68 -0.69 0.0279268 Primary.TSS
Possible membrane protein
No 5 -0.19 0.486967 Primary.TSS
\Possible mutator protein MutT3 (7,8-dihydro-8-oxoguanine-triphosphatase) \\\""
Repressed -78 -0.76 0.00000174 Internal.TSS
\Possible mutator protein MutT3 (7,8-dihydro-8-oxoguanine-triphosphatase) \\\""
Repressed -45 -0.76 0.00000174 CDS
Anti-sigma F factor antagonist (spoIIAA-2); Anti-sigma B factor antagonist RsbV
Repressed 37 -3.48 9.43e-22 Primary.TSS
Membrane acyltransferase
No -91 -0.45 0.0267583 Primary.TSS
DNA-directed RNA polymerase beta' subunit (EC 2.7.7.6)
No -16 0.2 0.389881 CDS
Displaying 1 - 5 of 5
ChipSeq TF Differential Expression Distance Expression pvalue Type
Histone protein Lsr2
No -62 0.22 0.464611 Primary.TSS
Transcriptional regulator, ArsR family
Repressed -25 -3.1 0 Primary.TSS
Transcriptional regulator, TetR family
No -125 0.1 0.890584 Primary.TSS
transcriptional regulator, ArsR family
Induced -52 0.61 0.000000378 Primary.TSS
Transcriptional regulator, MarR family
No -75 0.36 0.282708 Primary.TSS
Product (LegacyBRC) Product (RefSeq)
PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN [POSSIBLY ARSR-FAMILY] ArsR family transcriptional regulator
Operon # Operon
389 -
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
15607716 NP_215090.1 Run
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: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:  
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 GSM1426506 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426507 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426508 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0576_B420 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.610000 2.48

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: 0.000000647783
p-value INH: 0.870774
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D3I 3 3 3.83 10.53 I
D5I 9 5 6.00 11.64 I
D7I 18 7 8.14 9.87 I
D14I 4 14 15.63 4.37 I
D17I 3 17 19.15 2.28 I
D21I 4 21 23.23 5.34 I
D24I 3 24 26.60 I
D28I 4 28 30.61 2.16 I
D0U 27 0 0.00 11.46 U
D3U 3 3 3.83 10.60 U
D5U 17 5 6.00 12.51 U
D7U 19 7 8.14 10.73 U
D14U 4 14 15.63 8.27 U
D17U 3 17 19.15 7.39 U
D21U 4 21 23.23 8.01 U
D24U 3 24 26.60 6.90 U
D28U 4 28 30.61 6.89 U