Rv1623c Cytochrome d ubiquinol oxidase subunit I (EC 1.10.3.-)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1623c cydA Cytochrome d ubiquinol oxidase subunit I (EC 1.10.3.-) CDS 1824430 1825887 - 1 458 485 FALSE

Rv1623c (Cytochrome d ubiquinol oxidase subunit I (EC 1.10.3.-)) is predicted to be co-regulated in modules bicluster_0017 with residual 0.60 and bicluster_0260 with residual 0.50.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.25 and 10.00 for bicluster_0017 and 0.00 and 0.86 for bicluster_0260 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 11:39
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-15099 MT1659 2285
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, BlaI family
Repressed 16 -1.22 0.0113385 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0017
e.value: 
0.25
Motif Bicluster: 
e.value: 
10
Motif Bicluster: 
0.60
bicluster_0260
e.value: 
0.00000000083
Motif Bicluster: 
e.value: 
0.86
Motif Bicluster: 
0.50
Product (LegacyBRC) Product (RefSeq)
Probable integral membrane cytochrome D ubiquinol oxidase [Subunit I] cydA [Cytochrome BD-I oxidase subunit I] integral membrane cytochrome D ubiquinol oxidase (subunit I) cydA (cytochrome bd-I oxidase subunit I)
Operon # Operon
1064 -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

With oxygen as acceptor. Betalain biosynthesis
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Oxidative phosphorylation

47
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
57116893 YP_177824.1 Run
GO:0016491

oxidoreductase activity

oxidoreductase activity

Details: 
Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
GO Category: 
molecular_function
12
Total items in this category:  
GO:0006118

electron transport

electron transport

Details: 
OBSOLETE. The transport of electrons from an electron donor to an electron acceptor.
GO Category: 
biological_process
11
Total items in this category:  
GO:0016020

membrane

membrane

Details: 
Double layer of lipid molecules that encloses all cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins.
GO Category: 
cellular_component
33
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
0.810000 2.38

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: