Rv2559c ATPase, AAA family

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv2559c ATPase, AAA family CDS 2878571 2879929 - 1 359 452 FALSE

Rv2559c (ATPase, AAA family) is predicted to be co-regulated in modules bicluster_0252 with residual 0.55 and bicluster_0530 with residual 0.56.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 930.00 and 3,100.00 for bicluster_0252 and 0.00 and 0.46 for bicluster_0530 respectively.

These modules are enriched for following go terms: regulation of cell shape, regulation of anatomical structure morph..., regulation of cell morphogenesis, regulation of developmental process, cell morphogenesis, anatomical structure morphogenesis, developmental process, cellular component morphogenesis, single-organism developmental process, anatomical structure development, cellular developmental process, regulation of cellular component organiz..., cellular component organization .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 13:57
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-15052 MT2636 1261
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 1 of 1
ChipSeq TF Differential Expression Distance Expression pvalue Type
No 18 -0.25 0.999609 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0252
e.value: 
930
Motif Bicluster: 
e.value: 
3100
Motif Bicluster: 
0.55
bicluster_0530
e.value: 
0.00000008
Motif Bicluster: 
e.value: 
0.46
Motif Bicluster: 
0.56
Product (LegacyBRC) Product (RefSeq)
Uncharacterized AAA domain-containing protein Rv2559c_MT2636 recombination factor protein RarA
Operon # Operon
1680
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
15609696 NP_217075.1 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.
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.250000 0.83

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:
p-value INH: