PPGR - Gene Detail

Basic Information

Gene ID	Bpev01.c5208.g0002 View in Genome Browser
Position	Contig5208:1329-1844 (-) 515bp
Gene Type	gene
Gene Description (Protein Product)	Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin
Organism	Betula pendula
Also AS

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Domain

Database	EntryID	E-Value	Start	end	InterPro ID	Description

Regulation&Interaction

Protein-protein interaction (PPI)

Bpev01.c5612.g0004 Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus. GreA releases sequences of 2 to 3 nucleotides

Bpev01.c5436.g0003 DNA recombination protein RmuC

Bpev01.c5416.g0004 The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision

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Annotation

Orthologous Group

Orthologous ID	Species Number	All hits in PereRegDB	Hits of this species	Orthologous Detail

Expression Profile

DataSet	Number of Samples expressed(TPM>1)	Mean	Min	Max	Standard deviation(SD)	Coeffcient variation(CV)

Select Expression

Pathway

GO Term	Description	GO Category
GO:0000726	obsolete non-recombinational repair	BP
GO:0003674	molecular_function	MF
GO:0003824	catalytic activity	MF
GO:0003906	DNA-(apurinic or apyrimidinic site) endonuclease activity	MF
GO:0004518	nuclease activity	MF
GO:0004519	endonuclease activity	MF
GO:0004520	DNA endonuclease activity	MF
GO:0004536	deoxyribonuclease activity	MF
GO:0006139	nucleobase-containing compound metabolic process	BP
GO:0006259	DNA metabolic process	BP
GO:0006281	DNA repair	BP
GO:0006284	base-excision repair	BP
GO:0006725	cellular aromatic compound metabolic process	BP
GO:0006807	nitrogen compound metabolic process	BP
GO:0006950	response to stress	BP
GO:0006974	cellular response to DNA damage stimulus	BP
GO:0008081	phosphoric diester hydrolase activity	MF
GO:0008150	biological_process	BP
GO:0008152	metabolic process	BP
GO:0008833	deoxyribonuclease IV (phage-T4-induced) activity	MF
GO:0009987	cellular process	BP
GO:0016787	hydrolase activity	MF
GO:0016788	hydrolase activity, acting on ester bonds	MF
GO:0016888	endodeoxyribonuclease activity, producing 5'-phosphomonoesters	MF
GO:0016893	endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	MF
GO:0033554	cellular response to stress	BP
GO:0034641	cellular nitrogen compound metabolic process	BP
GO:0042578	phosphoric ester hydrolase activity	MF
GO:0043170	macromolecule metabolic process	BP
GO:0044237	cellular metabolic process	BP
GO:0044238	primary metabolic process	BP
GO:0044260	cellular macromolecule metabolic process	BP
GO:0046483	heterocycle metabolic process	BP
GO:0050896	response to stimulus	BP
GO:0051716	cellular response to stimulus	BP
GO:0071704	organic substance metabolic process	BP
GO:0090304	nucleic acid metabolic process	BP
GO:0090305	nucleic acid phosphodiester bond hydrolysis	BP
GO:0140097	catalytic activity, acting on DNA	MF
GO:1901360	organic cyclic compound metabolic process	BP

KEGG Term	Name	Description
map03410	Base excision repair	Base excision repair (BER) is the predominant DNA damage repair pathway for the processing of small base lesions, derived from oxidation and alkylation damages. BER is normally defined as DNA repair initiated by lesion-specific DNA glycosylases and completed by either of the two sub-pathways: short-patch BER where only one nucleotide is replaced and long-patch BER where 2-13 nucleotides are replaced. Each sub-pathway of BER relies on the formation of protein complexes that assemble at the site of the DNA lesion and facilitate repair in a coordinated fashion. This process of complex formation appears to provide an increase in specificity and efficiency to the BER pathway, thereby facilitating the maintenance of genome integrity by preventing the accumulation of highly toxic repair intermediates.