Rv1253 Cold-shock DEAD-box protein A

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1253 deaD Cold-shock DEAD-box protein A CDS 1399970 1401661 + 1 692 563 FALSE

Rv1253 (Cold-shock DEAD-box protein A) is predicted to be co-regulated in modules bicluster_0266 with residual 0.50 and bicluster_0430 with residual 0.49.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 41.00 and 620.00 for bicluster_0266 and 2,000.00 and 5,600.00 for bicluster_0430 respectively.

These modules are enriched for following go terms: primary metabolic process, cellular metabolic process, cellular process, organic substance metabolic process.

This gene is found to be for growth on cholesterol.

Mutant available?:

Product (LegacyBRC) Product (RefSeq)
Cold-shock DEAD box protein A homolog cold-shock DEAD-box protein A
Operon # Operon
853 -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

RNA degradation

10
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15608393 NP_215769.1 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
0.420000 1.41

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: