Rv3400 Trehalose-6-phosphate phosphatase (EC 3.1.3.12)

Summary
Product Feature Type Start End Strand Length AA Length is TF
Rv3400 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) CDS 3817239 3818027 + 789 262 FALSE

Rv3400 (Trehalose-6-phosphate phosphatase (EC 3.1.3.12)) is predicted to be co-regulated in modules bicluster_0321 with residual 0.54 and bicluster_0516 with residual 0.52.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 380.00 and 15,000.00 for bicluster_0321 and 2,900.00 and 10,000.00 for bicluster_0516 respectively.

These modules are enriched for following go terms: anion transport, external encapsulating structure, cell periphery, transmembrane transporter activity, transporter activity.

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
-0.877 64 3817220 3817284 3817239
Product (LegacyBRC) Product (RefSeq)
Uncharacterized protein Rv3400_MT3508 hydrolase
Operon # Operon
2225 -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Trehalose-phosphatase Starch and sucrose metabolism
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

not assigned to any KEGG Pathway.
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610536 NP_217917.1 Run
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.490000 1.42

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: