Rv1408 Ribulose-phosphate 3-epimerase (EC 5.1.3.1)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1408 rpe Ribulose-phosphate 3-epimerase (EC 5.1.3.1) CDS 1584499 1585197 + 699 232 FALSE

Rv1408 (Ribulose-phosphate 3-epimerase (EC 5.1.3.1)) is predicted to be co-regulated in modules bicluster_0004 with residual 0.43 and bicluster_0564 with residual 0.54.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 5,500.00 and 6,900.00 for bicluster_0004 and 0.55 and 7.40 for bicluster_0564 respectively.

These modules are enriched for following go terms: .

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

Mutant available?:

BASS Score Distance to Tuberculist Start Codon Internal TSS Re-Annotated Start Tuberculist Annotated Start
-0.534 9 1584508 1584508 1584499
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
No -114 -0.01 0.999609 Internal.TSS
Mycofactocin system transcriptional regulator
No 32 0.31 0.999588 Antisense.TSS
No -105 -0.01 0.999609 CDS
Motif 1 Motif 2 Residual
bicluster_0004
e.value: 
5500
Motif Bicluster: 
e.value: 
6900
Motif Bicluster: 
0.43
bicluster_0564
e.value: 
0.55
Motif Bicluster: 
e.value: 
7.4
Motif Bicluster: 
0.54
Product (LegacyBRC) Product (RefSeq)
Ribulose-phosphate 3-epimerase ribulose-phosphate 3-epimerase
Operon # Operon
944 Rv1406 - Rv1407 - Rv1408 - Rv1409
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Pentose phosphate pathway

19
Total items in this category:  

KEGG

Pentose and glucuronate interconversions

8
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  

KEGG

Biosynthesis of secondary metabolites

326
Total items in this category:  

KEGG

Microbial metabolism in diverse environments

296
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15608546 NP_215924.1 Run
GO:0004750

ribulose-phosphate 3-epimerase activity

ribulose-phosphate 3-epimerase activity

Details: 
Catalysis of the reaction: D-ribulose 5-phosphate = D-xylulose 5-phosphate.
GO Category: 
molecular_function
1
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.
Quantitative Proteomics Data
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
non-essential NA NA

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.