Rv1564c Glycogen debranching enzyme (EC 3.2.1.-)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv1564c treX Glycogen debranching enzyme (EC 3.2.1.-) CDS 1769436 1771601 - 2 166 721 FALSE

Rv1564c (Glycogen debranching enzyme (EC 3.2.1.-)) is predicted to be co-regulated in modules bicluster_0388 with residual 0.53 and bicluster_0444 with residual 0.53.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.00 and 0.05 for bicluster_0388 and 230.00 and 23,000.00 for bicluster_0444 respectively.

These modules are enriched for following go terms: cellular component organization, cellular component biogenesis, cellular component organization or bioge....

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
-0.711 -3 1771601 1771604 1771601
Last update: 10/16/2017 - 11:39
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-14882 MT1615 161
Product (LegacyBRC) Product (RefSeq)
Rv1564c maltooligosyltrehalose synthase TreX
Operon # Operon
1036 - - -
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
57116886 YP_177821.1 Run
GO:0005975

carbohydrate metabolic process

carbohydrate metabolic process

Details: 
The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
GO Category: 
biological_process
4
Total items in this category:  
GO:0043169

cation binding

cation binding

Details: 
Interacting selectively and non-covalently with cations, charged atoms or groups of atoms with a net positive charge.
GO Category: 
molecular_function
1
Total items in this category:  
GO:0003824

catalytic activity

catalytic activity

Details: 
Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
GO Category: 
molecular_function
12
Total items in this category:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.110000 1.13

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: