Rv1108c Exodeoxyribonuclease VII large subunit (EC 3.1.11.6)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1108c xseA Exodeoxyribonuclease VII large subunit (EC 3.1.11.6) CDS 1234213 1235460 - 1 248 415 FALSE

Rv1108c (Exodeoxyribonuclease VII large subunit (EC 3.1.11.6)) is predicted to be co-regulated in modules bicluster_0029 with residual 0.45 and bicluster_0426 with residual 0.50.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 3.30 and 4.20 for bicluster_0029 and 950.00 and 11,000.00 for bicluster_0426 respectively.

These modules are enriched for following go terms: nucleobase-containing compound catabolic..., aromatic compound catabolic process, macromolecule catabolic process, cellular nitrogen compound catabolic pro..., heterocycle catabolic process, organic cyclic compound catabolic proces..., deoxyribonuclease activity, exonuclease activity nicotinamide nucleotide metabolic proces..., oxidoreduction coenzyme metabolic proces..., pyridine nucleotide metabolic process, pyridine-containing compound metabolic p..., RNA binding.

This gene is found to be for growth on cholesterol.

Mutant available?:

Product (LegacyBRC) Product (RefSeq)
Exodeoxyribonuclease 7 large subunit exodeoxyribonuclease VII large subunit
Operon # Operon
748 - - -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Mismatch repair

19
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15608248 NP_215624.1 Run
GO:0008855

exodeoxyribonuclease VII activity

exodeoxyribonuclease VII activity

Details: 
Catalysis of the exonucleolytic cleavage in either 5' to 3' or 3' to 5' direction to yield 5'-phosphomononucleotides.
GO Category: 
molecular_function
2
Total items in this category:  
GO:0005618

cell wall

cell wall

Details: 
The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan.
GO Category: 
cellular_component
320
Total items in this category:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.400000 1.37

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: