Rv1528c PROBABLE CONSERVED POLYKETIDE SYNTHASE ASSOCIATED PROTEIN PAPA4

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1528c papA4 PROBABLE CONSERVED POLYKETIDE SYNTHASE ASSOCIATED PROTEIN PAPA4 CDS 1728953 1729450 - 498 165 FALSE

Rv1528c (PROBABLE CONSERVED POLYKETIDE SYNTHASE ASSOCIATED PROTEIN PAPA4) is predicted to be co-regulated in modules bicluster_0265 with residual 0.51 and bicluster_0375 with residual 0.45.

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_0265 and 0.00 and 0.01 for bicluster_0375 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score Re-Annotated Start Tuberculist Annotated Start
-0.799 1729393 1729450
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 3 of 3
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, TetR family
No -82 -0.1 0.863035 Antisense.TSS
RNA polymerase sigma-54 factor RpoN
Induced 59 5.07 0 Antisense.TSS
RNA polymerase sigma-70 factor
No 48 0.05 0.951764 Antisense.TSS
Motif 1 Motif 2 Residual
bicluster_0265
e.value: 
0.00053
Motif Bicluster: 
e.value: 
0.0017
Motif Bicluster: 
0.51
bicluster_0375
e.value: 
0.00001
Motif Bicluster: 
e.value: 
0.0092
Motif Bicluster: 
0.45
Product (LegacyBRC) Product (RefSeq)
PROBABLE CONSERVED POLYKETIDE SYNTHASE ASSOCIATED PROTEIN PAPA4 [Putative uncharacterized protein] polyketide synthase associated protein
Operon # Operon
1016
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
15608666 NP_216044.1 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
0.070000 0.85

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: