Rv1050 Oxidoreductase, short-chain dehydrogenase/reductase family (EC 1.1.1.-)

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv1050 Oxidoreductase, short-chain dehydrogenase/reductase family (EC 1.1.1.-) CDS 1172881 1173786 + 906 301 FALSE

Rv1050 (Oxidoreductase, short-chain dehydrogenase/reductase family (EC 1.1.1.-)) is predicted to be co-regulated in modules bicluster_0283 with residual 0.50 and bicluster_0535 with residual 0.57.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.01 and 1.50 for bicluster_0283 and 11.00 and 3,000.00 for bicluster_0535 respectively.

These modules are enriched for following go terms: .

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 - 3 of 3
ChipSeq TF Differential Expression Distance Expression pvalue Type
DNA-binding response regulator TrcR
No -18 -0.28 0.768598 CDS
Organic hydroperoxide resistance transcriptional regulator
Repressed 7 -1.36 0.000322503 CDS
No -132 0.18 0.999609 CDS
Motif 1 Motif 2 Residual
bicluster_0283
e.value: 
0.0097
Motif Bicluster: 
e.value: 
1.5
Motif Bicluster: 
0.50
bicluster_0535
e.value: 
11
Motif Bicluster: 
e.value: 
3000
Motif Bicluster: 
0.57
Product (LegacyBRC) Product (RefSeq)
PROBABLE OXIDOREDUCTASE oxidoreductase
Operon # Operon
704
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
15608190 NP_215566.1 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: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:  
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
t-test p-value Cholesterol/Glycerol Ratio
0.870000 3.32

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: