Rv1828 Transcriptional regulator, MerR family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv1828 Transcriptional regulator, MerR family CDS 2073081 2073824 + 744 247 TRUE

Rv1828 (Transcriptional regulator, MerR family) is predicted to be co-regulated in modules bicluster_0503 with residual 0.54 and bicluster_0594 with residual 0.46.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 2.50 and 5,400.00 for bicluster_0503 and 1,700.00 and 2,600.00 for bicluster_0594 respectively.

These modules are enriched for following go terms: .

This gene is found to be non-essential for growth on cholesterol.

Mutant available?:

Displaying 1 - 7 of 7
Gene Target Differential Expression Distance Expression pvalue Type
Transcriptional regulator, MarR family
No 16 0.03 0.979622 CDS
No -62 0.51 0.710982 Primary.TSS
Possible membrane protein
No -120 0.48 0.705446 Primary.TSS
Enoyl-CoA hydratase (EC 4.2.1.17)
Induced -47 0.71 0.0377193 Primary.TSS
Cell division protein FtsZ (EC 3.4.24.-)
No -30 0.64 0.111127 Primary.TSS
No -116 -0.51 0.421024 CDS
SSU ribosomal protein S2p (SAe)
No -132 0.14 0.862613 CDS
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
No results were found
Motif 1 Motif 2 Residual
bicluster_0503
e.value: 
2.5
Motif Bicluster: 
e.value: 
5400
Motif Bicluster: 
0.54
bicluster_0594
e.value: 
1700
Motif Bicluster: 
e.value: 
2600
Motif Bicluster: 
0.46
Product (LegacyBRC) Product (RefSeq)
Uncharacterized HTH-type transcriptional regulator Rv1828_MT1876
Operon # Operon
1199 Rv1827 - Rv1828
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
15608965 NP_216344.1 Run
GO:0005829

cytosol

cytosol

Details: 
The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
GO Category: 
cellular_component
371
Total items in this category:  
GO:0040007

growth

growth

Details: 
The increase in size or mass of an entire organism, a part of an organism or a cell.
GO Category: 
biological_process
621
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 GSM1426729 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426730 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426731 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv1828_B366 UCSC Browser Tracks
Quantitative Proteomics Data
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
non-essential NA NA

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.

Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 13.53 U
D3I 3 3 3.83 13.05 I
D3U 3 3 3.83 13.15 U
D5I 9 5 6.00 13.55 I
D5U 17 5 6.00 13.27 U
D7I 18 7 8.14 13.34 I
D7U 19 7 8.14 12.54 U
D14I 4 14 15.63 10.84 I
D14U 4 14 15.63 10.62 U
D17I 3 17 19.15 9.99 I
D17U 3 17 19.15 9.82 U
D21I 4 21 23.23 10.29 I
D21U 4 21 23.23 10.09 U
D24I 3 24 26.60 9.14 I
D24U 3 24 26.60 9.32 U
D28I 4 28 30.61 9.33 I
D28U 4 28 30.61 9.83 U