Rv0032 2-amino-3-ketobutyrate coenzyme A ligase (EC 2.3.1.29)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0032 bioF2 2-amino-3-ketobutyrate coenzyme A ligase (EC 2.3.1.29) CDS 34295 36610 + 2 316 771 FALSE

Rv0032 (2-amino-3-ketobutyrate coenzyme A ligase (EC 2.3.1.29)) is predicted to be co-regulated in modules bicluster_0410 with residual 0.47 and bicluster_0548 with residual 0.54.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 1.20 and 4.10 for bicluster_0410 and 0.00 and 0.26 for bicluster_0548 respectively.

These modules are enriched for following go terms: .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

BASS Score New Primary UTR Primary TSS Re-Annotated Start Tuberculist Annotated Start
-0.842 367 33940 34307 34295
Last update: 10/16/2017 - 16:54
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-17860 MT0037 381
Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 7 of 7
ChipSeq TF Differential Expression Distance Expression pvalue Type
RNA polymerase sigma-54 factor RpoN
No 23 -0.08 0.99698 Primary.TSS
Organic hydroperoxide resistance transcriptional regulator
No -41 -0.11 0.888304 Primary.TSS
DNA-binding response regulator
No -44 0.11 0.800996 Primary.TSS
No -53 0.58 0.15077 Primary.TSS
Transcriptional regulator, TetR family
No -13 0.05 0.956681 Primary.TSS
putative two-component system response regulator
No -49 0.04 0.956542 Primary.TSS
DNA-binding response regulator TrcR
Induced -64 2.81 3.78e-18 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0410
e.value: 
1.2
Motif Bicluster: 
e.value: 
4.1
Motif Bicluster: 
0.47
bicluster_0548
e.value: 
0.000078
Motif Bicluster: 
e.value: 
0.26
Motif Bicluster: 
0.54
Product (LegacyBRC) Product (RefSeq)
POSSIBLE 8-AMINO-7-OXONONANOATE SYNTHASE BIOF2 [AONS] [8-AMINO-7-KETOPELARGONATE SYNTHASE] [7-KETO-8-AMINO-PELARGONIC ACID SYNTHETASE] [7-KAP SYNTHETASE] [L-ALANINE--PIMELYL CoA LIGASE] 8-amino-7-oxononanoate synthase BioF2
Operon # Operon
20 - - -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Serine C-palmitoyltransferase Sphingolipid metabolism
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Biotin metabolism

13
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15607174 NP_214546.1 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
0.940000 2.38

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: