Rv3127 Oxygen-insensitive NADPH nitroreductase (EC 1.-.-.-)

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv3127 Oxygen-insensitive NADPH nitroreductase (EC 1.-.-.-) CDS 3492147 3493181 + 1 035 344 FALSE

Rv3127 (Oxygen-insensitive NADPH nitroreductase (EC 1.-.-.-)) is predicted to be co-regulated in modules bicluster_0044 with residual 0.54 and bicluster_0549 with residual 0.51.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 2.50 and 3.40 for bicluster_0044 and 0.28 and 340.00 for bicluster_0549 respectively.

These modules are enriched for following go terms: monocarboxylic acid binding.

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score Distance to Tuberculist Start Codon Internal TSS New Internal UTR New Primary UTR Primary TSS Re-Annotated Start Tuberculist Annotated Start
-0.645 396 3492543 -441 -31 3492133 3492102 3492147
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 5 of 5
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, TetR family
No -17 -1.07 0.186613 Primary.TSS
Two component transcriptional regulatory protein DevR
Induced -44 4.65 2.65e-29 Primary.TSS
Transcriptional regulator, TetR family
No 65 0.03 0.991065 Primary.TSS
Transcriptional regulator, MarR family
Repressed -83 -2.53 0.000274992 Primary.TSS
HTH-type transcriptional regulator
No -52 -0.06 0.959688 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0044
e.value: 
2.5
Motif Bicluster: 
e.value: 
3.4
Motif Bicluster: 
0.54
bicluster_0549
e.value: 
0.28
Motif Bicluster: 
e.value: 
340
Motif Bicluster: 
0.51
Product (LegacyBRC) Product (RefSeq)
Putative uncharacterized protein
Operon # Operon
2043
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
15610264 NP_217643.1 Run
GO:0005618

cell wall

cell wall

Details: 
The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan.
GO Category: 
cellular_component
320
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:  
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.
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.750000 1.74

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: