Rv2790c 3-ketoacyl-CoA thiolase (EC 2.3.1.16)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv2790c ltp1 3-ketoacyl-CoA thiolase (EC 2.3.1.16) CDS 3098964 3100169 - 1 206 401 FALSE

Rv2790c (3-ketoacyl-CoA thiolase (EC 2.3.1.16)) is predicted to be co-regulated in modules bicluster_0435 with residual 0.53 and bicluster_0529 with residual 0.58.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 2,000.00 and 7,700.00 for bicluster_0435 and 0.00 and 0.08 for bicluster_0529 respectively.

These modules are enriched for following go terms: formyltetrahydrofolate deformylase activ....

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, ArsR family
No 21 -0.32 0.0162918 CDS
Motif 1 Motif 2 Residual
bicluster_0435
e.value: 
2000
Motif Bicluster: 
e.value: 
7700
Motif Bicluster: 
0.53
bicluster_0529
e.value: 
0.00000000000038
Motif Bicluster: 
e.value: 
0.082
Motif Bicluster: 
0.58
Product (LegacyBRC) Product (RefSeq)
PROBABLE LIPID-TRANSFER PROTEIN LTP1 lipid-transfer protein
Operon # Operon
1835 - - -
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Fatty acid metabolism

51
Total items in this category:  

KEGG

Valine, leucine and isoleucine degradation

60
Total items in this category:  

KEGG

Geraniol degradation

52
Total items in this category:  

KEGG

Benzoate degradation

48
Total items in this category:  

KEGG

alpha-Linolenic acid metabolism

1
Total items in this category:  

KEGG

Ethylbenzene degradation

11
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
15609927 NP_217306.1 Run
GO:0005618

cell wall

cell wall

Details: 
The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan.
GO Category: 
cellular_component
320
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
0.240000 1.03

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: