Rv2413c DNA polymerase III delta subunit (EC 2.7.7.7)

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv2413c DNA polymerase III delta subunit (EC 2.7.7.7) CDS 2710351 2711301 - 951 316 FALSE

Rv2413c (DNA polymerase III delta subunit (EC 2.7.7.7)) is predicted to be co-regulated in modules bicluster_0061 with residual 0.63 and bicluster_0180 with residual 0.54.

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_0061 and 19,000.00 and 20,000.00 for bicluster_0180 respectively.

These modules are enriched for following go terms: isomerase activity cellular macromolecule biosynthetic proc..., macromolecule biosynthetic process, regulation of transcription, DNA-depende..., regulation of RNA metabolic process, regulation of RNA biosynthetic process, regulation of biosynthetic process, regulation of gene expression, regulation of macromolecule biosynthetic..., regulation of cellular biosynthetic proc..., regulation of cellular macromolecule bio..., regulation of nucleobase-containing comp..., regulation of nitrogen compound metaboli..., regulation of cellular metabolic process, regulation of macromolecule metabolic pr..., regulation of primary metabolic process, transcription, DNA-dependent, regulation of metabolic process, RNA biosynthetic process, nucleic acid metabolic process, nucleic acid binding transcription facto..., sequence-specific DNA binding transcript....

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score Distance to Tuberculist Start Codon Internal TSS Re-Annotated Start Tuberculist Annotated Start
-1.682 873 2710428 2711319 2711301
Product (LegacyBRC) Product (RefSeq)
Putative uncharacterized protein
Operon # Operon
1592 - -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

DNA-directed DNA polymerase Pyrimidine metabolism, Purine 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
15609550 NP_216929.1 Run
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
NA NA

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: