Rv3916c Conserved hypothetical protein

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv3916c Conserved hypothetical protein CDS 4404433 4405167 - 735 244 FALSE

Rv3916c (Conserved hypothetical protein) is predicted to be co-regulated in modules bicluster_0008 with residual 0.62 and bicluster_0035 with residual 0.52.

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_0008 and 0.01 and 130.00 for bicluster_0035 respectively.

These modules are enriched for following go terms: hydroxymethyl-, formyl- and related tran....

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
Two component transcriptional regulatory protein DevR
No -44 -0.41 0.00208101 Primary.TSS
Transcriptional regulator, PadR family
No 0 0.11 0.814765 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0008
e.value: 
1.7e-16
Motif Bicluster: 
e.value: 
0.000000093
Motif Bicluster: 
0.62
bicluster_0035
e.value: 
0.012
Motif Bicluster: 
e.value: 
130
Motif Bicluster: 
0.52
Product (LegacyBRC) Product (RefSeq)
Putative uncharacterized protein
Operon # Operon
2554 Rv3916c
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics
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
15611052 NP_218433.1 Run
GO:0005886

plasma membrane

plasma membrane

Details: 
The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
GO Category: 
cellular_component
1284
Total items in this category:  
GO:0051409

response to nitrosative stress

response to nitrosative stress

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a nitrosative stress stimulus. Nitrosative stress is a state often resulting from exposure to high levels of nitric oxide (NO) or the highly reactive oxidant peroxynitrite, which is produced following interaction of NO with superoxide anions.
GO Category: 
biological_process
14
Total items in this category:  
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
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
No results were found 0.500000 0.34

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.