Rv3198c ATP-dependent DNA helicase UvrD/PcrA, actinomycete paralog

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv3198c uvrD2 ATP-dependent DNA helicase UvrD/PcrA, actinomycete paralog CDS 3569109 3571211 - 2 103 700 FALSE

Rv3198c (ATP-dependent DNA helicase UvrD/PcrA, actinomycete paralog) is predicted to be co-regulated in modules bicluster_0056 with residual 0.52 and bicluster_0364 with residual 0.56.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.11 and 16,000.00 for bicluster_0056 and 0.02 and 2.50 for bicluster_0364 respectively.

These modules are enriched for following go terms: oxidoreductase activity, acting on a sul..., helicase activity, oxidoreductase activity, acting on a sul... .

This gene is found to be for growth on cholesterol.

Mutant available?: Yes

Last update: 10/16/2017 - 15:27
BEI Mutant Available BEI Mutant ID BEI MT Number BEI Target ID Order from BEI
Yes NR-14925 MT3291 270
Product (LegacyBRC) Product (RefSeq)
Probable DNA helicase II homolog ATP-dependent DNA helicase II UVRD2
Operon # Operon
2088
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Nucleotide excision repair

14
Total items in this category:  

KEGG

Mismatch repair

19
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15610334 NP_217714.1 Run
GO:0004003

ATP-dependent DNA helicase activity

ATP-dependent DNA helicase activity

Details: 
Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction drives the unwinding of the DNA helix.
GO Category: 
molecular_function
5
Total items in this category:  
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:0006281

DNA repair

DNA repair

Details: 
The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
GO Category: 
biological_process
8
Total items in this category:  
GO:0003677

DNA binding

DNA binding

Details: 
Any molecular function by which a gene product interacts selectively with DNA (deoxyribonucleic acid).
GO Category: 
molecular_function
37
Total items in this category:  
GO:0000287

magnesium ion binding

magnesium ion binding

Details: 
Interacting selectively and non-covalently with magnesium (Mg) ions.
GO Category: 
molecular_function
52
Total items in this category:  
GO:0003678

DNA helicase activity

DNA helicase activity

Details: 
Catalysis of the reaction: NTP + H2O = NDP + phosphate, to drive the unwinding of a DNA helix.
GO Category: 
molecular_function
3
Total items in this category:  
GO:0008094

DNA-dependent ATPase activity

DNA-dependent ATPase activity

Details: 
Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction requires the presence of single- or double-stranded DNA, and it drives another reaction.
GO Category: 
molecular_function
5
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:  
No TFOE experiment results were found
Quantitative Proteomics Data
t-test p-value Cholesterol/Glycerol Ratio
NA NA

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: