Rv3579c 23S rRNA (guanosine-2'-O-) -methyltransferase rlmB (EC 2.1.1.-)

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv3579c 23S rRNA (guanosine-2'-O-) -methyltransferase rlmB (EC 2.1.1.-) CDS 4021425 4022393 - 969 322 FALSE

Rv3579c (23S rRNA (guanosine-2'-O-) -methyltransferase rlmB (EC 2.1.1.-)) is predicted to be co-regulated in modules bicluster_0355 with residual 0.51 and bicluster_0504 with residual 0.56.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 260.00 for bicluster_0355 and 0.00 and 3.10 for bicluster_0504 respectively.

These modules are enriched for following go terms: lipid biosynthetic process, cellular lipid metabolic process nitrogen cycle metabolic process, transition metal ion binding, hydrolase activity, acting on carbon-nit..., metal ion binding.

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_0355
e.value: 
0.000000028
Motif Bicluster: 
e.value: 
260
Motif Bicluster: 
0.51
bicluster_0504
e.value: 
0.0025
Motif Bicluster: 
e.value: 
3.1
Motif Bicluster: 
0.56
Product (LegacyBRC) Product (RefSeq)
POSSIBLE TRNA_RRNA METHYLTRANSFERASE tRNA/rRNA methyltransferase
Operon # Operon
2332 -
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
15610715 NP_218096.1 Run
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: