Rv1960c Antitoxin ParD1

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1960c parD1 Antitoxin ParD1 CDS 2203974 2204225 - 252 83 FALSE

Rv1960c (Antitoxin ParD1) is predicted to be co-regulated in modules bicluster_0032 with residual 0.49 and bicluster_0531 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 0.01 for bicluster_0032 and 3,300.00 and 2,400.00 for bicluster_0531 respectively.

These modules are enriched for following go terms: protein dimerization activity.

This gene is found to be for growth on cholesterol.

Mutant available?:

Product (LegacyBRC) Product (RefSeq)
UPF0156 protein Rv1960c_MT2009
Operon # Operon
1283 -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

not assigned to any KEGG Pathway.
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15609097 NP_216476.1 Run
GO:0015643

toxin binding

toxin binding

Details: 
Interacting selectively and non-covalently with a toxin, a poisonous substance that causes damage to biological systems.
GO Category: 
molecular_function
8
Total items in this category:  
GO:0045927

positive regulation of growth

positive regulation of growth

Details: 
Any process that activates or increases the rate or extent of growth, the increase in size or mass of all or part of an organism.
GO Category: 
biological_process
31
Total items in this category:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.220000 0.47

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: 0.909512
p-value INH: 0.725941
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D24U 3 24 26.60 9.13 U
D17U 3 17 19.15 9.43 U
D28U 4 28 30.61 9.45 U
D14U 4 14 15.63 9.79 U
D21U 4 21 23.23 9.81 U
D7U 19 7 8.14 10.25 U
D24I 3 24 26.60 10.58 I
D14I 4 14 15.63 10.66 I
D7I 18 7 8.14 10.66 I
D28I 4 28 30.61 10.67 I
D17I 3 17 19.15 10.72 I
D21I 4 21 23.23 10.86 I
D3U 3 3 3.83 11.12 U
D0U 27 0 0.00 11.28 U
D3I 3 3 3.83 11.47 I
D5U 17 5 6.00 11.85 U
D5I 9 5 6.00 12.19 I