Rv0844c DNA-binding response regulator, LuxR family

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0844c narL DNA-binding response regulator, LuxR family CDS 940456 941106 - 651 216 FALSE

Rv0844c (DNA-binding response regulator, LuxR family) is predicted to be co-regulated in modules bicluster_0099 with residual 0.60 and bicluster_0112 with residual 0.53.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 5.70 and 470.00 for bicluster_0099 and 0.70 and 3.00 for bicluster_0112 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
No results were found
Motif 1 Motif 2 Residual
bicluster_0099
e.value: 
5.7
Motif Bicluster: 
e.value: 
470
Motif Bicluster: 
0.60
bicluster_0112
e.value: 
0.7
Motif Bicluster: 
e.value: 
3
Motif Bicluster: 
0.53
Product (LegacyBRC) Product (RefSeq)
POSSIBLE NITRATE_NITRITE RESPONSE TRANSCRIPTIONAL REGULATORY PROTEIN NARL nitrate/nitrite response transcriptional regulatory protein NarL
Operon # Operon
564
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
15607984 NP_215359.1 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:  
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 GSM1426578 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426579 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426580 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0844c_B428 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.470000 0.96

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:
p-value INH:
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 4.48 U
D3I 3 3 3.83 4.64 I
D3U 3 3 3.83 3.72 U
D5I 9 5 6.00 I
D5U 17 5 6.00 U
D7I 18 7 8.14 3.40 I
D7U 19 7 8.14 4.26 U
D14I 4 14 15.63 5.00 I
D14U 4 14 15.63 4.63 U
D17I 3 17 19.15 5.82 I
D17U 3 17 19.15 5.00 U
D21I 4 21 23.23 5.07 I
D21U 4 21 23.23 4.71 U
D24I 3 24 26.60 4.33 I
D24U 3 24 26.60 4.86 U
D28I 4 28 30.61 4.69 I
D28U 4 28 30.61 3.99 U