Rv2745c Transcriptional regulator, XRE family

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv2745c clgR Transcriptional regulator, XRE family CDS 3058193 3058531 - 339 112 TRUE

Rv2745c (Transcriptional regulator, XRE family) is predicted to be co-regulated in modules bicluster_0073 with residual 0.60 and bicluster_0158 with residual 0.52.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.00 for bicluster_0073 and 20,000.00 and 33,000.00 for bicluster_0158 respectively.

These modules are enriched for following go terms: pyruvate dehydrogenase activity, pyruvate dehydrogenase (acetyl-transferr..., oxidoreductase activity, acting on the a....

This gene is found to be for growth on cholesterol.

Mutant available?:

Displaying 1 - 3 of 3
Gene Target Differential Expression Distance Expression pvalue Type
No -73 0.05 0.951548 CDS
14 kDa antigen (16 kDa antigen) (HSP 16.3)
No 62 -0.3 0.909442 Primary.TSS
Dinucleotide-utilizing enzyme, Rv2032/acg (acr-coregulated gene)
No -78 -0.52 0.752634 Primary.TSS
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
No results were found
Motif 1 Motif 2 Residual
bicluster_0073
e.value: 
0.0000015
Motif Bicluster: 
e.value: 
0.000047
Motif Bicluster: 
0.60
bicluster_0158
e.value: 
20000
Motif Bicluster: 
e.value: 
33000
Motif Bicluster: 
0.52
Product (LegacyBRC) Product (RefSeq)
POSSIBLE TRANSCRIPTIONAL REGULATORY PROTEIN transcriptional regulatory protein
Operon # Operon
1806
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
15609882 NP_217261.1 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.
BioProject Accession GEO Series References Repository Sample Method Sample Type
PRJNA254351 GSM1426864 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426865 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426866 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426867 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv2745c_B142 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.530000 0.26

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: 0.00268449
p-value INH: 0.832328
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 13.81 U
D3I 3 3 3.83 14.36 I
D3U 3 3 3.83 14.15 U
D5I 9 5 6.00 12.88 I
D5U 17 5 6.00 12.86 U
D7I 18 7 8.14 14.18 I
D7U 19 7 8.14 13.66 U
D14I 4 14 15.63 12.50 I
D14U 4 14 15.63 13.10 U
D17I 3 17 19.15 10.98 I
D17U 3 17 19.15 12.60 U
D21I 4 21 23.23 10.96 I
D21U 4 21 23.23 12.86 U
D24I 3 24 26.60 9.15 I
D24U 3 24 26.60 12.38 U
D28I 4 28 30.61 9.41 I
D28U 4 28 30.61 12.56 U