3.1.11.2: exodeoxyribonuclease III
This is an abbreviated version!
For detailed information about exodeoxyribonuclease III, go to the full flat file.
Word Map on EC 3.1.11.2
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3.1.11.2
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strand
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single-stranded
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polymerases
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duplex
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dicer
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endonucleases
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dsrnas
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bacteriophage
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proofreading
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endoribonuclease
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mismatch
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drosha
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ultrasensitive
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klenow
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nick
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stem-loop
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ssdna
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abasic
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exonucleolytic
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aptamer
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nucleases
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polynucleotide
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translesion
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dntp
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aptasensors
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argonaut
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ape1
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pri-mirnas
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misincorporation
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g-quadruplexes
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overhang
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pnpase
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exonuclease-deficient
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microprocessor
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dsrna-binding
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primase
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tetraloops
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iii-dependent
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micrococcal
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aphidicolin
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pre-rrnas
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primer-template
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dnazyme
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rna-induced
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foscarnet
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template-primer
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synthesis
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target-induced
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medicine
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rna-specific
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analysis
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molecular biology
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okazaki
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dicer-like
- 3.1.11.2
- strand
-
single-stranded
- polymerases
- duplex
- dicer
- endonucleases
- dsrnas
- bacteriophage
-
proofreading
-
endoribonuclease
- mismatch
- drosha
-
ultrasensitive
-
klenow
- nick
-
stem-loop
- ssdna
-
abasic
-
exonucleolytic
- aptamer
- nucleases
- polynucleotide
-
translesion
- dntp
-
aptasensors
-
argonaut
- ape1
-
pri-mirnas
-
misincorporation
-
g-quadruplexes
-
overhang
- pnpase
-
exonuclease-deficient
-
microprocessor
-
dsrna-binding
- primase
- tetraloops
-
iii-dependent
-
micrococcal
- aphidicolin
- pre-rrnas
-
primer-template
- dnazyme
-
rna-induced
- foscarnet
-
template-primer
- synthesis
-
target-induced
- medicine
-
rna-specific
- analysis
- molecular biology
-
okazaki
-
dicer-like
Reaction
Exonucleolytic cleavage in the 3'- to 5'- direction to yield nucleoside 5'-phosphates =
Synonyms
3'-5' exonuclease, 3'-5' exonuclease III, AP endonuclease VI, AP-endonuclease/3'-5'exodeoxyribonuclease, Ape2, class II apurinic/apyrimidinic-endonuclease/3'-5' exonuclease III, class-II AP-endonuclease, DNA pol, E. coli exonuclease III, EC 3.1.4.27, Escherichia coli exonuclease III, exo III, EXO-3, exodeoxyribonuclease III, ExoIII, exonuclease III, exonuclease-3, MacExoIII, More, MtbXthA, nuclease, endoribo-, III, nuclease, Escherichia coli exo-, III, ribonuclease III, RNase III, Sso, xthA, xthA-1 gene product
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Application
Application on EC 3.1.11.2 - exodeoxyribonuclease III
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analysis
medicine
molecular biology
in contrast to DNA cloning utilizing in vitro recombination, some strains of Escherichia coli can take up linear double-stranded vectors, insert DNA fragments, and assemble them in vivo involving exonulcease III. The ends of these linear DNA fragments must contain 20 to 50 bp of overlapping homologous sequences. Improved protocols for in vivo cloning have realized a high level of usability comparable to that by in vitro recombination reactions, but using the exonuclease III, it is only necessary to introduce PCR products into Escherichia coli for the in vivo cloning
synthesis
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enzyme is used for purification of eucaryotic extrachromosomal circular DNAs using exonuclease III
additional information
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using the cleavage function of exonuclease III on double-stranded DNA, design of an amplified DNA detection scheme employing a stem-loop DNA molecular beacon as the signaling probe. Exonuclease III used to recycle target molecules, thus leading to improved sensitivity relative to traditional molecular beacons without any significant restriction in the choice of target sequences
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restriction analysis of the prototype strain of enteric adenovirus type 41 using exonulease
analysis
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analysis of 3'-terminal nucleotide sequences of duplex DNA. Under selected conditions the enzyme can be used to remove a small defined number of nucleotides from each 3'-terminus of duplex DNA
analysis
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use of the enzyme in a quantitative DNA probe assay based on exonuclease III digestion of probes hybridized on target DNA
analysis
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identification of DNA bonding sites of two pyrrolobenzodiazepine derivatives - tomamycin and anthramycin
analysis
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the enzyme is used for incremental truncation to create a library of all possible single base-pair deletions of a given piece of DNA. Incremental truncation libraries have application in protein engineering as well as protein folding, enzyme evolution and the chemical synthesis of proteins
analysis
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use of exonuclease III to determine the site of stable lesions in defined sequences of DNA: the cyclobutane pyrimidine dimer and cis and trans dichlorodiamine platinum II examples
analysis
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enzymatically amplified surface plasmon resonance imaging detection of DNA by exonuclease III digestion of DNA microarrays. Through the use of ExoIII in conjunction with DNA microarrays, a 100-1000 improvement in the detection limit for the multiplexed surface plasmon resonance imaging detection of 16-mer oligonucleotides is achieved. This enhancement is not as great as RNase H amplification with RNA microarrays. The major advantage of ExoIII amplification compared to RNase H is that the additional difficulty in preparing and handling RNA microarrays is avoided. The ExoIII enzymatic amplification process can be used with the more robust and cost-effective DNA microarrays that are currently applied in research areas such as gene analysis and medical diagnostics. Most DNA sequences can be detected since the activity of ExoIII is not sequence dependent
analysis
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utility of a more versatile target assisted Exo III-catalyzed amplification fluorescence polarization, TAECA-FP, methodology for the highly sensitive and selective detection of DNA
analysis
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a combined treatment of nucleosomes with micrococcal nuclease and exonuclease III overcomes micrococcal nuclease sequence preference and produces nucleosomal DNA trimmed symmetrically and precisely at the core/linker junctions regardless of the underlying DNA sequence. Combined micrococcal nuclease/exonuclease III digestion can be applied to in situ chromatin for unbiased genome-wide mapping of nucleosome positions that is not ifluenced by DNA sequences at the core/linker junctions. The same approach can be also used for the precise mapping of the extent of linker DNA protection by H1 and other protein factors associated with nucleosome linkers
analysis
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development of a graphene oxide-based fluorescent aptasensor for adenosine detection by employing exonuclease III as a signal amplifying element. In the presence of adenosine, the adenosine aptamers associate with the targets, which leads to the formation of duplex DNAs between the cDNAs and the signal probes. Exonuclease III thereafter can digest the duplex DNAs from 3' blunt terminus of signal probes, liberating the fluorophore. The biosensor exhibits an ultrahigh sensitivity and holds a versatile platform for clinical diagnostics, molecular biology and drug developments
analysis
cell cycle profiling by image and flow cytometry, optimised protocol for the detection of replicational activity using 5-bromo-2'-deoxyuridine, low concentration of hydrochloric acid and exonuclease III, method evaluation and optimization, detailed overview
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study of a novel strategy using enzyme for direct sequencing of double-stranded DNA by MALDI-TOF mass spectroscopy
medicine
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study of a simple and efficient technique for the generation of a series of multiple competitor DNA fragments for competitive PCR, based on a wild-type gene, by making use of enzyme
medicine
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the enzyme is helpful for PCR amplification of long DNA templates
medicine
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the sequential degradation of completely rhodamine-labeled DNA by enzyme could be the key to a future single-molecule sequencing