Rv3417c Heat shock protein 60 family chaperone GroEL

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3417c groEL1 Heat shock protein 60 family chaperone GroEL CDS 3835272 3836891 - 1 620 539 TRUE

Rv3417c (Heat shock protein 60 family chaperone GroEL) is predicted to be co-regulated in modules bicluster_0327 with residual 0.42 and bicluster_0369 with residual 0.51.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 440.00 and 980.00 for bicluster_0327 and 5.10 and 230.00 for bicluster_0369 respectively.

These modules are enriched for following go terms: monocarboxylic acid binding, protein tyrosine kinase activity, sulfur compound binding, protein kinase activity, amide binding lipid biosynthetic process, lipid metabolic process, transferase activity, methyltransferase activity.

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 11/20/2020 - 12:12
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-15118 MT3526 990
Product (LegacyBRC) Product (RefSeq)
60 kDa chaperonin 1 chaperonin GroEL
Operon # Operon
2235
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

RNA degradation

10
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610553 NP_217934.1 Run
GO:0005524

ATP binding

ATP binding

Details: 
Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
GO Category: 
molecular_function
58
Total items in this category:  
GO:0044267

cellular protein metabolic process

cellular protein metabolic process

Details: 
The chemical reactions and pathways involving a specific protein, rather than of proteins in general, occurring at the level of an individual cell. Includes cellular protein modification.
GO Category: 
biological_process
4
Total items in this category:  
GO:0005515

protein binding

protein binding

Details: 
Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
GO Category: 
molecular_function
135
Total items in this category:  
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:  
GO:0005886

plasma membrane

plasma membrane

Details: 
The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
GO Category: 
cellular_component
1284
Total items in this category:  
GO:0009408

response to heat

response to heat

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
GO Category: 
biological_process
11
Total items in this category:  
GO:0040007

growth

growth

Details: 
The increase in size or mass of an entire organism, a part of an organism or a cell.
GO Category: 
biological_process
621
Total items in this category:  
GO:0051260

protein homooligomerization

protein homooligomerization

Details: 
The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
GO Category: 
biological_process
31
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.
BioProject Accession GEO Series References Repository Sample Method Sample Type
PRJNA254351 GSM1426999 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1427000 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1427001 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv3417c_B371 UCSC Browser Tracks
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
0.670000 1.76

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: 0.507553
p-value INH: 0.910292
Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 7.59 U
D3I 3 3 3.83 6.73 I
D3U 3 3 3.83 6.32 U
D5I 9 5 6.00 10.72 I
D5U 17 5 6.00 10.53 U
D7I 18 7 8.14 7.23 I
D7U 19 7 8.14 6.96 U
D14I 4 14 15.63 4.27 I
D14U 4 14 15.63 5.37 U
D17I 3 17 19.15 5.32 I
D17U 3 17 19.15 5.16 U
D21I 4 21 23.23 4.48 I
D21U 4 21 23.23 5.26 U
D24I 3 24 26.60 4.52 I
D24U 3 24 26.60 4.80 U
D28I 4 28 30.61 3.27 I
D28U 4 28 30.61 5.33 U