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Literature summary for 4.2.99.B1 extracted from

  • Gellon, L.; Carson, D.R.; Carson, J.P.; Demple, B.
    Intrinsic 5'-deoxyribose-5-phosphate lyase activity in Saccharomyces cerevisiae Trf4 protein with a possible role in base excision DNA repair (2008), DNA Repair, 7, 187-198.
    View publication on PubMedView publication on EuropePMC
Search for more literature for 4.2.99.B1

Protein Variants

Protein Variants Comment Organism
K552A site-directed mutagenesis matching the active site of polbeta. The mutant Trf4K552A is overexpressed in a trf4DELTA mutant. The overproduction of Trf4 wild-type increases methylmethane sulfonate resistance similar to that of of the wild-type. The Trf4K552A mutant exhibits hypersensitivity to methylmethane sulfonate, causing double-stranded DNA breaks Saccharomyces cerevisiae

Organism

Organism UniProt Comment Textmining
Saccharomyces cerevisiae P53632
-
-

Purification (Commentary)

Purification (Comment) Organism
purified from recombinant protein of an Escherichia coli expression system Saccharomyces cerevisiae

Reaction

Reaction Comment Organism Reaction ID
catalysis of the beta-elimination of the 5' deoxyribose-5-phosphate at an abasic site in DNA where a DNA-(apurinic or apyrimidinic site) lyase has already cleaved the C-O-P bond 3' to the apurinic or apyrimidinic site Trf4 is able to form a Schiff base intermediate with a 5'-deoxyribose-5-phosphate substrate and to excise the abasic residue throuigh a dRP lyase activity and plays a role in single-nucleotide pathway of the base excision repair system. The dRP lyase reaction proceeds through a beta-elimination mechanism, verified by the addition of NaBH4 to trap the Schiff base intermediate, forming a covalent enzyme-DNA complex Saccharomyces cerevisiae
a

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
52-pb synthetic duplex DNA labelled [32P]-uracil at position 22, pretreated with uracil DNA-glycosylase and Escherichia coli endonuclease IV Saccharomyces cerevisiae ? + 2-deoxy-D-ribose 5-phosphate the percentage of total 2-deoxyribose 5-phosphate excised is calculated by dividing the amount of the dRP lyase product formed in each reaction by the sum of this product and the amount of the substrate DNA containing intact 5'-deoxyribose-5-phosphate ?

Synonyms

Synonyms Comment Organism
5'-deoxyribose-5-phosphate lyase
-
 Saccharomyces cerevisiae
dRP lyase
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 Saccharomyces cerevisiae
Trf4 putative member of X family DNA polymerase, functional homolog of polbeta Saccharomyces cerevisiae

Temperature Optimum [°C]

Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
30
-
 assay at Saccharomyces cerevisiae

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
7.5
-
 assay at Saccharomyces cerevisiae