Rv3711c DNA polymerase III epsilon subunit (EC 2.7.7.7)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3711c dnaQ DNA polymerase III epsilon subunit (EC 2.7.7.7) CDS 4155740 4156729 - 990 329 FALSE

Rv3711c (DNA polymerase III epsilon subunit (EC 2.7.7.7)) is predicted to be co-regulated in modules bicluster_0031 with residual 0.69 and bicluster_0424 with residual 0.58.

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_0031 and 0.00 and 0.00 for bicluster_0424 respectively.

These modules are enriched for following go terms: damaged DNA binding, cysteine-type endopeptidase activity, cysteine-type peptidase activity cellular macromolecule catabolic process, nucleobase-containing compound catabolic..., aromatic compound catabolic process, macromolecule catabolic process, exonuclease activity, active with either..., deoxyribonuclease activity, oxidoreductase activity, acting on paire..., exonuclease activity.

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 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, TetR family
Repressed 31 -1.5 1.19e-18 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0031
e.value: 
6.9e-32
Motif Bicluster: 
e.value: 
2.3e-16
Motif Bicluster: 
0.69
bicluster_0424
e.value: 
1.4e-35
Motif Bicluster: 
e.value: 
7.6e-26
Motif Bicluster: 
0.58
Product (LegacyBRC) Product (RefSeq)
PROBABLE DNA POLYMERASE III [EPSILON SUBUNIT] DNAQ DNA polymerase III subunit epsilon
Operon # Operon
2419
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

DNA-directed DNA polymerase Purine metabolism, Pyrimidine metabolism
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Purine metabolism

65
Total items in this category:  

KEGG

Pyrimidine metabolism

41
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  

KEGG

DNA replication

14
Total items in this category:  

KEGG

Mismatch repair

19
Total items in this category:  

KEGG

Homologous recombination

22
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610847 NP_218228.1 Run
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
0.060000 0.60

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: