Rv1657 Arginine pathway regulatory protein ArgR, repressor of arg regulon

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1657 argR Arginine pathway regulatory protein ArgR, repressor of arg regulon CDS 1870842 1871354 + 513 170 TRUE

Rv1657 (Arginine pathway regulatory protein ArgR, repressor of arg regulon) is predicted to be co-regulated in modules bicluster_0521 with residual 0.55 and bicluster_0572 with residual 0.62.

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_0521 and 0.00 and 0.00 for bicluster_0572 respectively.

These modules are enriched for following go terms: fatty acid biosynthetic process, monocarboxylic acid biosynthetic process.

This gene is found to be for growth on cholesterol.

Mutant available?:

Displaying 1 - 2 of 2
Gene Target Differential Expression Distance Expression pvalue Type
N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38)
Induced -17 3.02 1.43e-19 CDS
N-acetyl-gamma-glutamyl-phosphate reductase (EC 1.2.1.38)
Induced -32 3.02 1.43e-19 Internal.TSS
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
No results were found
Motif 1 Motif 2 Residual
bicluster_0521
e.value: 
0.0011
Motif Bicluster: 
e.value: 
0.0096
Motif Bicluster: 
0.55
bicluster_0572
e.value: 
6.7e-23
Motif Bicluster: 
e.value: 
0.00000000000039
Motif Bicluster: 
0.62
Product (LegacyBRC) Product (RefSeq)
Rv1657 arginine repressor
Operon # Operon
1087 - - - - - -
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
15608795 NP_216173.1 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:0051260

protein homooligomerization

protein homooligomerization

Details: 
The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
GO Category: 
biological_process
31
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 GSM1426702 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426703 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426704 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv1657_B190 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.070000 0.51

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: 0.733065
p-value INH: 0.863117
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 11.14 U
D3I 3 3 3.83 11.47 I
D3U 3 3 3.83 10.85 U
D5I 9 5 6.00 6.89 I
D5U 17 5 6.00 6.71 U
D7I 18 7 8.14 9.78 I
D7U 19 7 8.14 9.86 U
D14I 4 14 15.63 9.94 I
D14U 4 14 15.63 12.13 U
D17I 3 17 19.15 9.77 I
D17U 3 17 19.15 11.10 U
D21I 4 21 23.23 13.06 I
D21U 4 21 23.23 9.81 U
D24I 3 24 26.60 13.72 I
D24U 3 24 26.60 11.95 U
D28I 4 28 30.61 13.28 I
D28U 4 28 30.61 12.21 U