Rv1298 LSU ribosomal protein L31p

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1298 rpmE LSU ribosomal protein L31p CDS 1455163 1455405 + 243 80 FALSE

Rv1298 (LSU ribosomal protein L31p) is predicted to be co-regulated in modules bicluster_0105 with residual 0.56 and bicluster_0595 with residual 0.62.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 3,200.00 and 5,800.00 for bicluster_0105 and 0.17 and 3,400.00 for bicluster_0595 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

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Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 3 of 3
ChipSeq TF Differential Expression Distance Expression pvalue Type
RNA polymerase sigma-54 factor RpoN
No -23 0.09 0.859926 Primary.TSS
Possible oxidoreductase subunit
No -76 0.02 0.983658 Primary.TSS
transcriptional regulator, ArsR family
No -147 0.16 0.57343 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0105
e.value: 
3200
Motif Bicluster: 
e.value: 
5800
Motif Bicluster: 
0.56
bicluster_0595
e.value: 
0.17
Motif Bicluster: 
e.value: 
3400
Motif Bicluster: 
0.62
Product (LegacyBRC) Product (RefSeq)
50S ribosomal protein L31 50S ribosomal protein L31
Operon # Operon
883
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Ribosome

60
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15608438 NP_215814.1 Run
GO:0006412

translation

translation

Details: 
The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA. Translation ends with the release of a polypeptide chain from the ribosome.
GO Category: 
biological_process
62
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:  
GO:0005840

ribosome

ribosome

Details: 
An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.
GO Category: 
cellular_component
53
Total items in this category:  
GO:0003735

structural constituent of ribosome

structural constituent of ribosome

Details: 
The action of a molecule that contributes to the structural integrity of the ribosome.
GO Category: 
molecular_function
53
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: