Rv3223c RNA polymerase sigma-54 factor RpoN

Rv3223c (RNA polymerase sigma-54 factor RpoN) is predicted to be co-regulated in modules bicluster_0224 with residual 0.55 and bicluster_0470 with residual 0.49.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 480.00 and 27.00 for bicluster_0224 and 150.00 and 8,000.00 for bicluster_0470 respectively.

These modules are enriched for following go terms: regulation of cellular process, regulation of biological process, biological regulation .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Displaying 11 - 20 of 21
Gene Target Differential Expression Distance Expression pvalue Type
Induced -12 3.49 1.84e-19 CDS
Membrane alanine aminopeptidase N (EC 3.4.11.2)
Induced -114 0.67 0.0000644 Primary.TSS
Glutathione S-transferase domain protein
No 27 0.56 0.0758994 Primary.TSS
No 27 0.3 0.422502 Internal.TSS
No -137 0.3 0.422502 CDS
No 16 0.3 0.422502 Antisense.TSS
Ribonuclease BN (EC 3.1.-.-)
Induced 16 1.03 0.00000000158 Primary.TSS
Sulfur carrier protein adenylyltransferase ThiF
Induced 25 1.32 2.53e-29 CDS
RNA polymerase sigma-54 factor RpoN
Induced 29 1.41 5.27e-17 Primary.TSS
PPE family protein
Induced 17 0.84 0.0000827 CDS
not assigned to any KEGG Pathway.
GO:0005515

protein binding

protein binding

Details: 
Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
GO Category: 
molecular_function
135
Total items in this category:  
GO:0006950

response to stress

response to 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 disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
GO Category: 
biological_process
9
Total items in this category:  
GO:0006979

response to oxidative stress

response to oxidative 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 oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
GO Category: 
biological_process
13
Total items in this category:  
GO:0009408

response to heat

response to heat

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 heat stimulus, a temperature stimulus above the optimal temperature for that organism.
GO Category: 
biological_process
11
Total items in this category:  
GO:0034605

cellular response to heat

cellular response to heat

Details: 
Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
GO Category: 
biological_process
2
Total items in this category:  
GO:0006355

regulation of transcription, DNA-dependent

regulation of transcription, DNA-dependent

Details: 
Any process that modulates the frequency, rate or extent of cellular DNA-dependent transcription.
GO Category: 
biological_process
15
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:  
GO:0052572

response to host immune response

response to host immune response

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 detecting the immune response of the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.
GO Category: 
biological_process
62
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.
BioProject Accession GEO Series References Repository Sample Method Sample Type
PRJNA254351 GSM1426955 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426956 GSE59086 25232098 GEO Tiling Array RNA
TRIP log2 fold abundance change
NA
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 12.11 U
D3I 3 3 3.83 12.34 I
D3U 3 3 3.83 12.50 U
D5I 9 5 6.00 11.70 I
D5U 17 5 6.00 12.90 U
D7I 18 7 8.14 10.93 I
D7U 19 7 8.14 12.56 U
D14I 4 14 15.63 6.07 I
D14U 4 14 15.63 12.09 U
D17I 3 17 19.15 4.47 I
D17U 3 17 19.15 12.25 U
D21I 4 21 23.23 8.86 I
D21U 4 21 23.23 12.37 U
D24I 3 24 26.60 I
D24U 3 24 26.60 12.55 U
D28I 4 28 30.61 4.40 I
D28U 4 28 30.61 12.53 U