Rv0834c PE-PGRS FAMILY PROTEIN

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0834c PE_PGRS14 PE-PGRS FAMILY PROTEIN CDS 927837 930485 - 2 649 882 FALSE

Rv0834c (PE-PGRS FAMILY PROTEIN) is predicted to be co-regulated in modules bicluster_0194 with residual 0.52 and bicluster_0397 with residual 0.58.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.17 for bicluster_0194 and 0.00 and 0.00 for bicluster_0397 respectively.

These modules are enriched for following go terms: RNA-3'-phosphate cyclase activity nitrogen compound metabolic process, carbon-oxygen lyase activity.

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 08:59
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-18370 MT0855 2116
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
Beta-carotene ketolase (EC 1.14.-.-)
No -69 0.36 0.999473 Internal.TSS
Motif 1 Motif 2 Residual
bicluster_0194
e.value: 
0
Motif Bicluster: 
e.value: 
0.17
Motif Bicluster: 
0.52
bicluster_0397
e.value: 
0.000000000016
Motif Bicluster: 
e.value: 
0.000063
Motif Bicluster: 
0.58
Product (LegacyBRC) Product (RefSeq)
PE-PGRS FAMILY PROTEIN PE-PGRS family protein
Operon # Operon
555
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
57116789 YP_177761.1 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
0.500000 1.18

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: