Rv3469c 4-hydroxy-2-oxovalerate aldolase (EC 4.1.3.-)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3469c mhpE 4-hydroxy-2-oxovalerate aldolase (EC 4.1.3.-) CDS 3886073 3887083 - 1 011 336 FALSE

Rv3469c (4-hydroxy-2-oxovalerate aldolase (EC 4.1.3.-)) is predicted to be co-regulated in modules bicluster_0125 with residual 0.48 and bicluster_0553 with residual 0.46.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 28.00 for bicluster_0125 and 0.00 and 0.01 for bicluster_0553 respectively.

These modules are enriched for following go terms: transport, establishment of localization, localization, transporter activity .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 15:33
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-14937 MT3575 317
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 2 of 2
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator kstR (Rv3574), TetR family
No -8 -0.11 0.75312 CDS
Transcriptional regulator, TetR family
No -74 -0.2 0.637605 CDS
Motif 1 Motif 2 Residual
bicluster_0125
e.value: 
0.00000000079
Motif Bicluster: 
e.value: 
28
Motif Bicluster: 
0.48
bicluster_0553
e.value: 
0.00043
Motif Bicluster: 
e.value: 
0.0059
Motif Bicluster: 
0.46
Product (LegacyBRC) Product (RefSeq)
PROBABLE 4-HYDROXY-2-OXOVALERATE ALDOLASE MHPE [HOA] 4-hydroxy-2-ketovalerate aldolase
Operon # Operon
2266 -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Oxo-acid-lyases. 1- and 2-Methylnaphthalene degradation, Pyruvate metabolism
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Phenylalanine metabolism

13
Total items in this category:  

KEGG

Benzoate degradation

48
Total items in this category:  

KEGG

Dioxin degradation

5
Total items in this category:  

KEGG

Xylene degradation

4
Total items in this category:  

KEGG

Ethylbenzene degradation

11
Total items in this category:  

KEGG

Metabolic pathways

601
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
15610605 NP_217986.1 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
0.210000 1.09

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: