Rv3120 Possible methyltransferase (EC 2.1.1.-)

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv3120 Possible methyltransferase (EC 2.1.1.-) CDS 3485572 3486174 + 603 200 FALSE

Rv3120 (Possible methyltransferase (EC 2.1.1.-)) is predicted to be co-regulated in modules bicluster_0325 with residual 0.54 and bicluster_0349 with residual 0.51.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 72.00 for bicluster_0325 and 2.40 and 4,600.00 for bicluster_0349 respectively.

These modules are enriched for following go terms: gene expression, macromolecule metabolic process, cellular macromolecule biosynthetic proc..., macromolecule biosynthetic process, ribosome, ribonucleoprotein complex, non-membrane-bounded organelle, intracellular non-membrane-bounded organ..., nucleotidyltransferase activity lipopolysaccharide metabolic process, lipopolysaccharide biosynthetic process, carbon-carbon lyase activity, oxo-acid-lyase activity.

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
Histone protein Lsr2
No -112 0.32 0.228232 CDS
Transcriptional regulator, TetR family
No -32 -0.04 0.918202 CDS
Motif 1 Motif 2 Residual
bicluster_0325
e.value: 
0.0049
Motif Bicluster: 
e.value: 
72
Motif Bicluster: 
0.54
bicluster_0349
e.value: 
2.4
Motif Bicluster: 
e.value: 
4600
Motif Bicluster: 
0.51
Product (LegacyBRC) Product (RefSeq)
Putative uncharacterized protein
Operon # Operon
2037 - - - -
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
15610257 NP_217636.1 Run
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
0.310000 1.06

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: