Rv2506 Transcriptional regulator, TetR family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv2506 Transcriptional regulator, TetR family CDS 2821712 2822359 + 648 215 TRUE

Rv2506 (Transcriptional regulator, TetR family) is predicted to be co-regulated in modules bicluster_0530 with residual 0.56 and bicluster_0552 with residual 0.57.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.46 for bicluster_0530 and 0.00 and 0.00 for bicluster_0552 respectively.

These modules are enriched for following go terms: IMP biosynthetic process, 'de novo' IMP biosynthetic process, IMP metabolic process.

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

Mutant available?:

Displaying 1 - 8 of 8
Gene Target Differential Expression Distance Expression pvalue Type
POSSIBLE MYCOLIC ACID SYNTHASE UMAA1
No 48 0.13 0.914929 Primary.TSS
No -52 0.07 0.973522 CDS
Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit A (EC 2.8.3.5)
Repressed 29 -2.98 0 CDS
Transcriptional regulator, TetR family
Induced -8 3.82 0 Primary.TSS
Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit
No 9 -0.47 0.630014 Primary.TSS
PPE family protein
No -146 0.12 0.96359 CDS
Multidrug resistance protein B
No -96 0.13 0.95143 CDS
Glycine betaine ABC transport system permease protein
No -31 0.12 0.928168 CDS
Displaying 1 - 3 of 3
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, TetR family
Induced -8 3.82 0 Primary.TSS
Transcriptional regulator, ArsR family
Repressed -5 -1.52 0.00000000000000347 Primary.TSS
transcriptional regulator, ArsR family
No -15 0.46 0.0114501 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0530
e.value: 
0.00000008
Motif Bicluster: 
e.value: 
0.46
Motif Bicluster: 
0.56
bicluster_0552
e.value: 
0.00000000000003
Motif Bicluster: 
e.value: 
0.0018
Motif Bicluster: 
0.57
Product (LegacyBRC) Product (RefSeq)
PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN [PROBABLY TETR-FAMILY] TetR family transcriptional regulator
Operon # Operon
1647 Rv2506
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
15609643 NP_217022.1 Run
GO:0042783

active evasion of host immune response

active evasion of host immune response

Details: 
Any mechanism of immune avoidance that directly affects the host immune system, e.g. blocking any stage in host MHC class I and II presentation. The host is defined as the larger of the organisms involved in a symbiotic interaction.
GO Category: 
biological_process
20
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 GSM1426832 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426833 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426834 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426832 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426833 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426834 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv2506_B489 UCSC Browser Tracks
Rv2506_B623 UCSC Browser Tracks
Quantitative Proteomics Data
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
essential 0.000000 0.23

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 13.99 U
D3I 3 3 3.83 13.61 I
D3U 3 3 3.83 12.48 U
D5I 9 5 6.00 14.62 I
D5U 17 5 6.00 14.07 U
D7I 18 7 8.14 15.16 I
D7U 19 7 8.14 14.73 U
D14I 4 14 15.63 14.97 I
D14U 4 14 15.63 14.24 U
D17I 3 17 19.15 16.26 I
D17U 3 17 19.15 14.49 U
D21I 4 21 23.23 16.32 I
D21U 4 21 23.23 14.91 U
D24I 3 24 26.60 17.01 I
D24U 3 24 26.60 14.99 U
D28I 4 28 30.61 16.70 I
D28U 4 28 30.61 15.11 U