Rv3403c Zn-dependent hydrolases, including glyoxylases

Summary

Product Feature Type Start End Strand Length AA Length is TF
Rv3403c Zn-dependent hydrolases, including glyoxylases CDS 3822262 3823863 - 1 602 533 FALSE

Rv3403c (Zn-dependent hydrolases, including glyoxylases) is predicted to be co-regulated in modules bicluster_0004 with residual 0.43 and bicluster_0267 with residual 0.52.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 5,500.00 and 6,900.00 for bicluster_0004 and 0.00 and 0.05 for bicluster_0267 respectively.

These modules are enriched for following go terms: carboxylic acid biosynthetic process, organic acid biosynthetic process, histidine biosynthetic process, histidine metabolic process, imidazole-containing compound metabolic ..., cellular amino acid metabolic process, small molecule biosynthetic process, single-organism biosynthetic process, aromatic amino acid family biosynthetic ....

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 15:33
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-14714 MT3511 19
Product (LegacyBRC) Product (RefSeq)
Uncharacterized protein Rv3403c_MT3511
Operon # Operon
2227 -
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
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
15610539 NP_217920.1 Run
No TFOE experiment results were found

Quantitative Proteomics Data

t-test p-value Cholesterol/Glycerol Ratio
0.240000 1.07

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: