Rv3042c Phosphoserine phosphatase (EC 3.1.3.3)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3042c serB2 Phosphoserine phosphatase (EC 3.1.3.3) CDS 3401933 3403162 - 1 230 409 FALSE

Rv3042c (Phosphoserine phosphatase (EC 3.1.3.3)) is predicted to be co-regulated in modules bicluster_0364 with residual 0.56 and bicluster_0585 with residual 0.58.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.02 and 2.50 for bicluster_0364 and 0.06 and 350.00 for bicluster_0585 respectively.

These modules are enriched for following go terms: cofactor biosynthetic process, coenzyme metabolic process, cofactor metabolic process.

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 - 2 of 2
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, TetR family
No 33 0.1 0.684999 Internal.TSS
Transcriptional regulator, TetR family
No -69 0.19 0.550474 CDS
Motif 1 Motif 2 Residual
bicluster_0364
e.value: 
0.024
Motif Bicluster: 
e.value: 
2.5
Motif Bicluster: 
0.56
bicluster_0585
e.value: 
0.055
Motif Bicluster: 
e.value: 
350
Motif Bicluster: 
0.58
Product (LegacyBRC) Product (RefSeq)
PROBABLE PHOSPHOSERINE PHOSPHATASE SERB2 [PSP] [O-PHOSPHOSERINE PHOSPHOHYDROLASE] [PSPASE] phosphoserine phosphatase
Operon # Operon
1989 - - - - -
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Glycine, serine and threonine metabolism

27
Total items in this category:  

KEGG

Methane metabolism

26
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  

KEGG

Microbial metabolism in diverse environments

296
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610179 NP_217558.1 Run
GO:0004647

phosphoserine phosphatase activity

phosphoserine phosphatase activity

Details: 
Catalysis of the reaction: L(or D)-O-phosphoserine + H2O = L(or D)-serine + phosphate.
GO Category: 
molecular_function
2
Total items in this category:  
GO:0040007

growth

growth

Details: 
The increase in size or mass of an entire organism, a part of an organism or a cell.
GO Category: 
biological_process
621
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
NA NA

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: