Rv2175c

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv2175c FALSE

Rv2175c () is predicted to be co-regulated in modules bicluster_0352 with residual 0.50 and bicluster_0449 with residual 0.57.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.01 and 2,900.00 for bicluster_0352 and 0.00 and 0.00 for bicluster_0449 respectively.

These modules are enriched for following go terms: cellular biosynthetic process, organic substance biosynthetic process, translational elongation, macromolecule metabolic process, biosynthetic process, intracellular, macromolecular complex, translation elongation factor activity .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

BASS Score Distance to Tuberculist Start Codon Internal TSS Re-Annotated Start Tuberculist Annotated Start
-1.625 36 2437850 2437850 2437886
Last update: 11/20/2020 - 12:12
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18633 MT2231 2728
Product (LegacyBRC) Product (RefSeq)
putative regulatory protein
Operon # Operon
1423
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics
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
15609312 NP_216691.1 Run
GO:0003677

DNA binding

DNA binding

Details: 
Any molecular function by which a gene product interacts selectively with DNA (deoxyribonucleic acid).
GO Category: 
molecular_function
37
Total items in this category:  
GO:0018107

peptidyl-threonine phosphorylation

peptidyl-threonine phosphorylation

Details: 
The phosphorylation of peptidyl-threonine to form peptidyl-O-phospho-L-threonine.
GO Category: 
biological_process
3
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.
BioProject Accession GEO Series References Repository Sample Method Sample Type
PRJNA254351 GSM1426799 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426800 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426801 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv2175c_B615 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.020000 0.73

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: 0.00201109
p-value INH: 0.935449
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 12.51 U
D3I 3 3 3.83 12.47 I
D3U 3 3 3.83 12.24 U
D5I 9 5 6.00 10.48 I
D5U 17 5 6.00 10.15 U
D7I 18 7 8.14 12.59 I
D7U 19 7 8.14 12.14 U
D14I 4 14 15.63 11.10 I
D14U 4 14 15.63 10.33 U
D17I 3 17 19.15 9.84 I
D17U 3 17 19.15 9.08 U
D21I 4 21 23.23 9.81 I
D21U 4 21 23.23 9.35 U
D24I 3 24 26.60 8.21 I
D24U 3 24 26.60 7.63 U
D28I 4 28 30.61 8.52 I
D28U 4 28 30.61 7.48 U