Rv2870c 1-deoxy-D-xylulose 5-phosphate reductoisomerase (EC 1.1.1.267)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv2870c dxr 1-deoxy-D-xylulose 5-phosphate reductoisomerase (EC 1.1.1.267) CDS 3181770 3183011 - 1 242 413 FALSE

Rv2870c (1-deoxy-D-xylulose 5-phosphate reductoisomerase (EC 1.1.1.267)) is predicted to be co-regulated in modules bicluster_0025 with residual 0.54 and bicluster_0405 with residual 0.59.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.31 and 8.20 for bicluster_0025 and 0.58 and 2.90 for bicluster_0405 respectively.

These modules are enriched for following go terms: nucleotide-sugar metabolic process alcohol metabolic process, phospholipid metabolic process, phospholipid biosynthetic process.

This gene is found to be for growth on cholesterol.

Mutant available?:

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
Transcriptional regulator, TetR family
No -51 -0.14 0.69741 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0025
e.value: 
0.31
Motif Bicluster: 
e.value: 
8.2
Motif Bicluster: 
0.54
bicluster_0405
e.value: 
0.58
Motif Bicluster: 
e.value: 
2.9
Motif Bicluster: 
0.59
Product (LegacyBRC) Product (RefSeq)
1-deoxy-D-xylulose 5-phosphate reductoisomerase 1-deoxy-D-xylulose 5-phosphate reductoisomerase
Operon # Operon
1876 - -
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
57117032 NP_217386.2 Run
GO:0030604

1-deoxy-D-xylulose-5-phosphate reductoisomerase activity

1-deoxy-D-xylulose-5-phosphate reductoisomerase activity

Details: 
Catalysis of the reaction: 2-C-methyl-D-erythritol 4-phosphate + NADP(+) = 1-deoxy-D-xylulose 5-phosphate + H(+) + NADPH.
GO Category: 
molecular_function
1
Total items in this category:  
GO:0000287

magnesium ion binding

magnesium ion binding

Details: 
Interacting selectively and non-covalently with magnesium (Mg) ions.
GO Category: 
molecular_function
52
Total items in this category:  
GO:0030145

manganese ion binding

manganese ion binding

Details: 
Interacting selectively and non-covalently with manganese (Mn) ions.
GO Category: 
molecular_function
31
Total items in this category:  
GO:0030604

1-deoxy-D-xylulose-5-phosphate reductoisomerase activity

1-deoxy-D-xylulose-5-phosphate reductoisomerase activity

Details: 
Catalysis of the reaction: 2-C-methyl-D-erythritol 4-phosphate + NADP(+) = 1-deoxy-D-xylulose 5-phosphate + H(+) + NADPH.
GO Category: 
molecular_function
1
Total items in this category:  
GO:0050897

cobalt ion binding

cobalt ion binding

Details: 
Interacting selectively and non-covalently with a cobalt (Co) ion.
GO Category: 
molecular_function
5
Total items in this category:  
GO:0051483

terpenoid biosynthetic process, mevalonate-independent

terpenoid biosynthetic process, mevalonate-independent

Details: 
The chemical reactions and pathways resulting in the formation of terpenoids, independent of mevalonate. Isopentenyl diphosphate (IPP) is the fundamental unit in terpenoid biosynthesis, and in mevalonate-independent biosynthesis, it is produced from pyruvate and glyceraldehyde 3-phosphate via intermediates including 1-deoxy-D-xylulose 5-phosphate.
GO Category: 
biological_process
1
Total items in this category:  
GO:0070402

NADPH binding

NADPH binding

Details: 
Interacting selectively and non-covalently with the reduced form, NADPH, of nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions.
GO Category: 
molecular_function
6
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
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.

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: