Rv0116c Possible membrane protein

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0116c ldtA Possible membrane protein CDS 140267 141022 - 756 251 FALSE

Rv0116c (Possible membrane protein) is predicted to be co-regulated in modules bicluster_0260 with residual 0.50 and bicluster_0311 with residual 0.51.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.86 for bicluster_0260 and 0.00 and 0.00 for bicluster_0311 respectively.

These modules are enriched for following go terms: .

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 - 3 of 3
ChipSeq TF Differential Expression Distance Expression pvalue Type
No 65 -0.07 0.999609 Primary.TSS
DNA-binding response regulator mtrA
No -45 0.09 0.927176 Primary.TSS
Two component transcriptional regulatory protein DevR
Repressed -6 -0.61 0.000189237 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0260
e.value: 
0.00000000083
Motif Bicluster: 
e.value: 
0.86
Motif Bicluster: 
0.50
bicluster_0311
e.value: 
0.0000094
Motif Bicluster: 
e.value: 
0.00031
Motif Bicluster: 
0.51
Product (LegacyBRC) Product (RefSeq)
POSSIBLE CONSERVED MEMBRANE PROTEIN
Operon # Operon
77
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
15607258 NP_214630.1 Run
GO:0005576

extracellular region

extracellular region

Details: 
The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
GO Category: 
cellular_component
272
Total items in this category:  
GO:0008954

peptidoglycan synthetase activity

peptidoglycan synthetase activity

Details: 
OBSOLETE (was not defined before being made obsolete).
GO Category: 
molecular_function
1
Total items in this category:  
GO:0018104

peptidoglycan-protein cross-linking

peptidoglycan-protein cross-linking

Details: 
The process of covalently linking peptidoglycan (murein) to proteins.
GO Category: 
biological_process
1
Total items in this category:  
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
0.270000 1.53

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: