Rv1244 Substrate-binding region of ABC-type glycine betaine transport system

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1244 lpqZ Substrate-binding region of ABC-type glycine betaine transport system CDS 1386857 1387717 + 861 286 FALSE

Rv1244 (Substrate-binding region of ABC-type glycine betaine transport system) is predicted to be co-regulated in modules bicluster_0179 with residual 0.46 and bicluster_0403 with residual 0.53.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 3,700.00 and 6,300.00 for bicluster_0179 and 0.00 and 0.00 for bicluster_0403 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?: Yes

BASS Score New Primary UTR Primary TSS Re-Annotated Start Tuberculist Annotated Start
-0.095 -76 1386810 1386734 1386857
Last update: 10/16/2017 - 11:09
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18146 MT1281 1556
Product (LegacyBRC) Product (RefSeq)
PROBABLE LIPOPROTEIN LPQZ lipoprotein LpqZ
Operon # Operon
845
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
15608384 NP_215760.1 Run
GO:0005829

cytosol

cytosol

Details: 
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
GO Category: 
cellular_component
371
Total items in this category:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.950000 2.15

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: