Rv1875 Pyridoxine 5'-phosphate oxidase

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv1875 Pyridoxine 5'-phosphate oxidase CDS 2124381 2124824 + 444 147 FALSE

Rv1875 (Pyridoxine 5'-phosphate oxidase) is predicted to be co-regulated in modules bicluster_0425 with residual 0.47 and bicluster_0431 with residual 0.49.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 4,100.00 and 3,500.00 for bicluster_0425 and 0.20 and 70.00 for bicluster_0431 respectively.

These modules are enriched for following go terms: DNA ligase activity, ligase activity, forming phosphoric este... .

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 - 5 of 5
ChipSeq TF Differential Expression Distance Expression pvalue Type
transcriptional regulator, ArsR family
Induced -5 0.75 0.0000191 CDS
RNA polymerase sigma-54 factor RpoN
Induced -150 2.67 3.86e-27 CDS
Transcriptional regulator, TetR family
No 62 0.31 0.509822 CDS
RNA polymerase sigma factor SigB
No 49 -0.16 0.631941 CDS
No -16 0.47 0.137919 CDS
Motif 1 Motif 2 Residual
bicluster_0425
e.value: 
4100
Motif Bicluster: 
e.value: 
3500
Motif Bicluster: 
0.47
bicluster_0431
e.value: 
0.2
Motif Bicluster: 
e.value: 
70
Motif Bicluster: 
0.49
Product (LegacyBRC) Product (RefSeq)
Putative uncharacterized protein
Operon # Operon
1228 -
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
15609012 NP_216391.1 Run
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:0010106

cellular response to iron ion starvation

cellular response to iron ion starvation

Details: 
Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of deprivation of iron ions.
GO Category: 
biological_process
14
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
0.130000 1.29

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: