Rv0691c Mycofactocin system transcriptional regulator

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv0691c Mycofactocin system transcriptional regulator CDS 791070 791666 - 597 198 TRUE

Rv0691c (Mycofactocin system transcriptional regulator) is predicted to be co-regulated in modules bicluster_0386 with residual 0.48 and bicluster_0486 with residual 0.55.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.11 and 1,000.00 for bicluster_0386 and 500.00 and 840.00 for bicluster_0486 respectively.

These modules are enriched for following go terms: DNA binding, nucleic acid binding.

This gene is found to be for growth on cholesterol.

Mutant available?:

Displaying 1 - 10 of 113
Gene Target Differential Expression Distance Expression pvalue Type
Cell division protein FtsW
No -23 0.2 0.999588 Internal.TSS
Serine hydroxymethyltransferase (EC 2.1.2.1)
No 34 -0.62 0.999588 Primary.TSS
Retron-type RNA-directed DNA polymerase (EC 2.7.7.49)
No -138 -0.05 0.999588 CDS
RNA polymerase factor sigma-70
No 0 0.13 0.999588 Primary.TSS
Aldehyde dehydrogenase (EC 1.2.1.3)
No 14 0.08 0.999588 Antisense.TSS
Transcriptional regulator, TetR family
No -107 -0.11 0.999588 Primary.TSS
3-methylmercaptopropionyl-CoA dehydrogenase (DmdC)
No -48 0.27 0.999588 Primary.TSS
Nitrilotriacetate monooxygenase component B (EC 1.14.13.-)
No -23 0.37 0.999588 Primary.TSS
Alanine transaminase (EC 2.6.1.2)
No 6 0.06 0.999588 CDS
HspR, transcriptional repressor of DnaK operon
No 52 0.31 0.999588 Primary.TSS
Displaying 1 - 5 of 5
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, MarR family
No 33 -0.58 0.0561648 CDS
Mycofactocin system transcriptional regulator
Induced -99 6.42 0 CDS
Beta-carotene ketolase (EC 1.14.-.-)
No 42 -0.17 0.999473 CDS
Transcriptional regulatory protein
Induced 67 0.85 0.000384364 CDS
Transcriptional regulator, MarR family
No 33 0.04 0.963476 CDS
Product (LegacyBRC) Product (RefSeq)
PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN transcriptional regulatory protein
Operon # Operon
463 -
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
15607831 NP_215205.1 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 GSM1426540 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426541 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426542 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0691c_B425 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.450000 4.42

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: 0.169114
p-value INH: 0.10934
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 15.13 U
D3I 3 3 3.83 15.03 I
D3U 3 3 3.83 15.34 U
D5I 9 5 6.00 14.07 I
D5U 17 5 6.00 14.28 U
D7I 18 7 8.14 14.39 I
D7U 19 7 8.14 14.80 U
D14I 4 14 15.63 13.68 I
D14U 4 14 15.63 14.08 U
D17I 3 17 19.15 12.34 I
D17U 3 17 19.15 13.49 U
D21I 4 21 23.23 11.83 I
D21U 4 21 23.23 13.41 U
D24I 3 24 26.60 10.46 I
D24U 3 24 26.60 12.62 U
D28I 4 28 30.61 10.15 I
D28U 4 28 30.61 12.38 U