Rv2445c Nucleoside diphosphate kinase (EC 2.7.4.6)

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv2445c ndk Nucleoside diphosphate kinase (EC 2.7.4.6) CDS 2745314 2745724 - 411 136 FALSE

Rv2445c (Nucleoside diphosphate kinase (EC 2.7.4.6)) is predicted to be co-regulated in modules bicluster_0084 with residual 0.58 and bicluster_0263 with residual 0.52.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 0.64 and 170.00 for bicluster_0084 and 940.00 and 17.00 for bicluster_0263 respectively.

These modules are enriched for following go terms: nucleobase-containing compound kinase ac... .

This gene is found to be for growth on cholesterol.

Mutant available?:

Product (LegacyBRC) Product (RefSeq)
Rv2445c nucleoside diphosphate kinase
Operon # Operon
1613
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics

PATRIC

Nucleoside-diphosphate kinase Purine metabolism, Pyrimidine metabolism
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

Purine metabolism

65
Total items in this category:  

KEGG

Pyrimidine metabolism

41
Total items in this category:  

KEGG

Metabolic pathways

601
Total items in this category:  

KEGG

Biosynthesis of secondary metabolites

326
Total items in this category:  
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15609582 NP_216961.1 Run
GO:0004550

nucleoside diphosphate kinase activity

nucleoside diphosphate kinase activity

Details: 
Catalysis of the reaction: ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.
GO Category: 
molecular_function
1
Total items in this category:  
GO:0004518

nuclease activity

nuclease activity

Details: 
Catalysis of the hydrolysis of ester linkages within nucleic acids.
GO Category: 
molecular_function
5
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:0005576

extracellular region

extracellular region

Details: 
The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
GO Category: 
cellular_component
272
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:0042025

host cell nucleus

host cell nucleus

Details: 
A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.
GO Category: 
cellular_component
1
Total items in this category:  
GO:0046777

protein autophosphorylation

protein autophosphorylation

Details: 
The phosphorylation by a protein of one or more of its own amino acid residues, or residues on an identical protein.
GO Category: 
biological_process
21
Total items in this category:  
GO:0090305

nucleic acid phosphodiester bond hydrolysis

nucleic acid phosphodiester bond hydrolysis

Details: 
The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
GO Category: 
biological_process
1
Total items in this category:  
GO:0004519

endonuclease activity

endonuclease activity

Details: 
Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks.
GO Category: 
molecular_function
3
Total items in this category:  
GO:0004844

uracil DNA N-glycosylase activity

uracil DNA N-glycosylase activity

Details: 
Catalysis of the cleavage of the N-C1' glycosidic bond between the damaged DNA base and the deoxyribose sugar, releasing a free base and leaving an apyrimidinic (AP) site. Enzymes with this activity recognize and remove uracil bases in DNA that result from the deamination of cytosine or the misincorporation of dUTP opposite an adenine.
GO Category: 
molecular_function
3
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: