Rv0260c Bifunctional uroporphyrinogen-III synthetase/response regulator domain protein

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0260c Bifunctional uroporphyrinogen-III synthetase/response regulator domain protein CDS 311514 312659 - 1 146 381 FALSE

Rv0260c (Bifunctional uroporphyrinogen-III synthetase/response regulator domain protein) is predicted to be co-regulated in modules bicluster_0085 with residual 0.46 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 , 5.70 and 5,400.00 for bicluster_0085 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?: Yes

Last update: 11/20/2020 - 12:11
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-14764 MT0273 90
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
No results were found
Motif 1 Motif 2 Residual
bicluster_0085
e.value: 
5.7
Motif Bicluster: 
e.value: 
5400
Motif Bicluster: 
0.46
bicluster_0311
e.value: 
0.0000094
Motif Bicluster: 
e.value: 
0.00031
Motif Bicluster: 
0.51
Product (LegacyBRC) Product (RefSeq)
POSIBLE TRANSCRIPTIONAL REGULATORY PROTEIN bifunctional uroporphyrinogen-III synthetase/response regulator domain protein
Operon # Operon
179 - -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Porphyrin and chlorophyll metabolism

31
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  

KEGG

Biosynthesis of secondary metabolites

326
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15607401 NP_214774.1 Run
GO:0005618

cell wall

cell wall

Details: 
The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan.
GO Category: 
cellular_component
320
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 GSM1426440 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426441 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426442 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0260c_B408 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.050000 0.93

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: 0.0204936
p-value INH: 0.988908
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 12.31 U
D3I 3 3 3.83 12.09 I
D3U 3 3 3.83 12.26 U
D5I 9 5 6.00 13.80 I
D5U 17 5 6.00 13.69 U
D7I 18 7 8.14 12.82 I
D7U 19 7 8.14 12.40 U
D14I 4 14 15.63 12.27 I
D14U 4 14 15.63 12.05 U
D17I 3 17 19.15 12.07 I
D17U 3 17 19.15 12.05 U
D21I 4 21 23.23 12.17 I
D21U 4 21 23.23 12.54 U
D24I 3 24 26.60 12.12 I
D24U 3 24 26.60 12.60 U
D28I 4 28 30.61 12.09 I
D28U 4 28 30.61 13.41 U