Rv1884c Resuscitation-promoting factor RpfC

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1884c rpfC Resuscitation-promoting factor RpfC CDS 2133731 2134261 - 531 176 FALSE

Rv1884c (Resuscitation-promoting factor RpfC) is predicted to be co-regulated in modules bicluster_0061 with residual 0.63 and bicluster_0443 with residual 0.45.

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_0061 and 0.00 and 0.40 for bicluster_0443 respectively.

These modules are enriched for following go terms: isomerase activity cellular biosynthetic process, organic substance biosynthetic process, cytoplasm, RNA binding.

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score Distance to Tuberculist Start Codon Internal TSS Re-Annotated Start Tuberculist Annotated Start
-0.749 108 2134153 2134153 2134261
Product (LegacyBRC) Product (RefSeq)
PROBABLE RESUSCITATION-PROMOTING FACTOR RPFC resuscitation-promoting factor RpfC
Operon # Operon
1234 - - - -
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
15609021 NP_216400.1 Run
GO:0005576

extracellular region

extracellular region

Details: 
The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
GO Category: 
cellular_component
272
Total items in this category:  
GO:0010628

positive regulation of gene expression

positive regulation of gene expression

Details: 
Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.
GO Category: 
biological_process
4
Total items in this category:  
GO:0010629

negative regulation of gene expression

negative regulation of gene expression

Details: 
Any process that decreases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Some protein processing events may be included when they are required to form an active form of a product from an inactive precursor form.
GO Category: 
biological_process
5
Total items in this category:  
GO:0040010

positive regulation of growth rate

positive regulation of growth rate

Details: 
Any process that increases the rate of growth of all or part of an organism.
GO Category: 
biological_process
5
Total items in this category:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.780000 1.12

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: