Rv3731 ATP-dependent DNA ligase (EC 6.5.1.1) LigC

Summary

Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3731 ligC ATP-dependent DNA ligase (EC 6.5.1.1) LigC CDS 4181758 4182834 + 1 077 358 FALSE

Rv3731 (ATP-dependent DNA ligase (EC 6.5.1.1) LigC) is predicted to be co-regulated in modules bicluster_0427 with residual 0.47 and bicluster_0511 with residual 0.52.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 4.60 for bicluster_0427 and 670.00 and 6,900.00 for bicluster_0511 respectively.

These modules are enriched for following go terms: galactose metabolic process, oxidoreductase activity, acting on the C... phosphopantetheine binding, modified amino acid binding, amide binding, amino acid binding.

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 16:15
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18826 MT3836 3262
Product (LegacyBRC) Product (RefSeq)
POSSIBLE ATP-DEPENDENT DNA LIGASE LIGC [POLYDEOXYRIBONUCLEOTIDE SYNTHASE [ATP]] [POLYNUCLEOTIDE LIGASE [ATP]] [SEALASE] [DNA REPAIR PROTEIN] [DNA JOINASE] ATP-dependent DNA ligase
Operon # Operon
2436
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Base excision repair

17
Total items in this category:  

KEGG

Nucleotide excision repair

14
Total items in this category:  

KEGG

Mismatch repair

19
Total items in this category:  

KEGG

Non-homologous end-joining

5
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610867 NP_218248.1 Run
No TFOE experiment results were found

Quantitative Proteomics Data

t-test p-value Cholesterol/Glycerol Ratio
0.040000 0.87

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: