Rv0188 PROBABLE CONSERVED TRANSMEMBRANE PROTEIN

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0188 PROBABLE CONSERVED TRANSMEMBRANE PROTEIN CDS 219486 219917 + 432 143 FALSE

Rv0188 (PROBABLE CONSERVED TRANSMEMBRANE PROTEIN) is predicted to be co-regulated in modules bicluster_0158 with residual 0.52 and bicluster_0560 with residual 0.59.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 20,000.00 and 33,000.00 for bicluster_0158 and 0.01 and 21.00 for bicluster_0560 respectively.

These modules are enriched for following go terms: pyruvate dehydrogenase activity, pyruvate dehydrogenase (acetyl-transferr..., oxidoreductase activity, acting on the a... folic acid-containing compound biosynthe..., pteridine-containing compound biosynthet..., coenzyme metabolic process, cellular modified amino acid biosyntheti....

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 - 7 of 7
ChipSeq TF Differential Expression Distance Expression pvalue Type
transcriptional regulator, ArsR family
Induced 6 0.88 0.00000000927 CDS
Two component DNA binding Transcriptional regulatory protein TcrA
No 5 -0.27 0.573151 CDS
Histone protein Lsr2
No 2 0.3 0.414341 CDS
Transcriptional regulator, ArsR family
No 5 0.36 0.0401787 CDS
DNA-binding response regulator mtrA
No -2 0.14 0.856043 CDS
Transcriptional regulator, ArsR family
No 23 0.22 0.999978 CDS
Transcriptional regulator, ArsR family
No 19 0.27 0.340311 CDS
Motif 1 Motif 2 Residual
bicluster_0158
e.value: 
20000
Motif Bicluster: 
e.value: 
33000
Motif Bicluster: 
0.52
bicluster_0560
e.value: 
0.014
Motif Bicluster: 
e.value: 
21
Motif Bicluster: 
0.59
Product (LegacyBRC) Product (RefSeq)
PROBABLE CONSERVED TRANSMEMBRANE PROTEIN transmembrane protein
Operon # Operon
129
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
15607329 NP_214702.1 Run
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
0.120000 0.72

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: