Rv3382c 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (EC 1.17.1.2)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3382c lytB1 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (EC 1.17.1.2) CDS 3796448 3797437 - 990 329 FALSE

Rv3382c (4-hydroxy-3-methylbut-2-enyl diphosphate reductase (EC 1.17.1.2)) is predicted to be co-regulated in modules bicluster_0357 with residual 0.54 and bicluster_0552 with residual 0.57.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 94.00 and 1,300.00 for bicluster_0357 and 0.00 and 0.00 for bicluster_0552 respectively.

These modules are enriched for following go terms: IMP biosynthetic process, 'de novo' IMP biosynthetic process, IMP metabolic process.

This gene is found to be for growth on cholesterol.

Mutant available?:

BASS Score New Primary UTR Primary TSS Re-Annotated Start Tuberculist Annotated Start
-0.534 472 3797915 3797443 3797437
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
HTH-type transcriptional regulator
No 42 -0.17 0.801063 Primary.TSS
Transcriptional regulator, TetR family
No 15 -0.87 0.133651 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0357
e.value: 
94
Motif Bicluster: 
e.value: 
1300
Motif Bicluster: 
0.54
bicluster_0552
e.value: 
0.00000000000003
Motif Bicluster: 
e.value: 
0.0018
Motif Bicluster: 
0.57
Product (LegacyBRC) Product (RefSeq)
Rv3382c LYTB-like protein LYTB1
Operon # Operon
2211 -
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Terpenoid backbone biosynthesis

27
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:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
57117100 YP_177967.1 Run
GO:0051745

4-hydroxy-3-methylbut-2-en-1-yl diphosphate reductase activity

4-hydroxy-3-methylbut-2-en-1-yl diphosphate reductase activity

Details: 
Catalysis of the reaction: (E)-4-hydroxy-3-methylbut-2-en-1-yl diphosphate + NAD(P)H + H+ = isopentenyl diphosphate + NAD(P)+ + H2O. Note that (E)-4-hydroxy-3-methylbut-2-en-1-yl diphosphate is an alternative name for 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate.
GO Category: 
molecular_function
2
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
t-test p-value Cholesterol/Glycerol Ratio
0.710000 1.39

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: