Rv1205 Lysine decarboxylase family

Summary

Product Feature Type Start End Strand Length AA Length is TF
Rv1205 Lysine decarboxylase family CDS 1348719 1349282 + 564 187 FALSE

Rv1205 (Lysine decarboxylase family) is predicted to be co-regulated in modules bicluster_0403 with residual 0.53 and bicluster_0578 with residual 0.46.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.00 for bicluster_0403 and 920.00 and 1,000.00 for bicluster_0578 respectively.

These modules are enriched for following go terms: cellular response to starvation, response to external stimulus, response to extracellular stimulus, response to nutrient levels, cellular response to extracellular stimu..., cellular response to nutrient levels, response to starvation, cellular response to external stimulus .

This gene is found to be for growth on cholesterol.

Mutant available?:

Product (LegacyBRC) Product (RefSeq)
Putative uncharacterized protein
Operon # Operon
822
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
15608345 NP_215721.1 Run
No TFOE experiment results were found

Quantitative Proteomics Data

t-test p-value Cholesterol/Glycerol Ratio
0.920000 2.73

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: