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Literature summary for 3.1.21.4 extracted from

  • Zhang, Y.; Nunoura, T.; Nishiura, D.; Hirai, M.; Shimamura, s.; Kurosawa, K.; Ishiwata, C.; Deguchi, S.
    A single-molecule counting approach for convenient and ultrasensitive measurement of restriction digest efficiencies (2020), PLoS One, 15, e0244464.
    View publication on PubMed
Search for more literature for 3.1.21.4

Application

Application Comment Organism
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Haemophilus parainfluenzae
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Brevibacillus brevis
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Lysinibacillus sphaericus
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Acidithiobacillus ferrooxidans
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Geobacillus stearothermophilus
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Acetobacter aceti
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Xanthomonas campestris pv. badrii
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Bergeriella denitrificans
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Neisseria oralis
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Priestia megaterium
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Bacillus amyloliquefaciens
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Xanthomonas campestris
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Pseudomonas fluorescens
analysis measurement of restriction digest efficiency using digital cell-free protein synthesis, which enables a sensitive trace analysis of undigested DNA at the single-molecule level in a PCR-free manner. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Gordonia rubripertincta

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.000027
-
 linear mNeonGreen DNA 37°C, pH not specified in the publication Bergeriella denitrificans

Organism

Organism UniProt Comment Textmining
Acetobacter aceti
-
-
-
Acidithiobacillus ferrooxidans
-
-
-
Bacillus amyloliquefaciens
-
-
-
Bergeriella denitrificans
-
-
-
Brevibacillus brevis
-
-
-
Geobacillus stearothermophilus Q8KWF1
-
-
Geobacillus stearothermophilus Q1PGP7
-
-
Geobacillus stearothermophilus E5Q8U2
-
-
Geobacillus stearothermophilus GR75 Q1PGP7
-
-
Gordonia rubripertincta O85489
-
-
Haemophilus parainfluenzae P29537
-
-
Lysinibacillus sphaericus
-
-
-
Neisseria oralis
-
-
-
Priestia megaterium
-
-
-
Priestia megaterium S2
-
-
-
Pseudomonas fluorescens F1KM53
-
-
Xanthomonas campestris G3JXC4
-
-
Xanthomonas campestris pv. badrii
-
-
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
linear mNeonGreen DNA + H2O
-
 Haemophilus parainfluenzae ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Brevibacillus brevis ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Lysinibacillus sphaericus ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Acidithiobacillus ferrooxidans ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Geobacillus stearothermophilus ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Acetobacter aceti ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Xanthomonas campestris pv. badrii ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Bergeriella denitrificans ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Neisseria oralis ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Priestia megaterium ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Bacillus amyloliquefaciens ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Xanthomonas campestris ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Pseudomonas fluorescens ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Gordonia rubripertincta ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Geobacillus stearothermophilus GR75 ?
-
 ?
linear mNeonGreen DNA + H2O
-
 Priestia megaterium S2 ?
-
 ?
additional information HpaI displays 95.84% digest efficiency by digitial counting and a digest efficiency of 99.4% by Bioanalyzer analysis Haemophilus parainfluenzae ?
-
-
additional information BbsI displays 87.35% digest efficiency by digitial counting and a digest efficiency of 91.1% by Bioanalyzer analysis Brevibacillus brevis ?
-
-
additional information BsgI displays 94.74% digest efficiency by digitial counting and a digest efficiency of 99.3% by Bioanalyzer analysis Lysinibacillus sphaericus ?
-
-
additional information AfeI displays 95.18% digest efficiency by digitial counting Acidithiobacillus ferrooxidans ?
-
-
additional information BstXI displays 77.76% digest efficiency by digitial counting and a digest efficiency of 61.5% by Bioanalyzer analysis Geobacillus stearothermophilus ?
-
-
additional information StuI displays 93.8% digest efficiency by digitial counting and a digest efficiency of 98.5% by Bioanalyzer analysis Acetobacter aceti ?
-
-
additional information BsrGI displays 93.78% digest efficiency by digitial counting and a digest efficiency of 97.7% by Bioanalyzer analysis Geobacillus stearothermophilus ?
-
-
additional information XbaI displays 99.25% digest efficiency by digitial counting Xanthomonas campestris pv. badrii ?
-
-
additional information NdeI displays 67.12% digest efficiency by digitial counting and a digest efficiency of 59.9% by Bioanalyzer analysis Bergeriella denitrificans ?
-
-
additional information NheI displays 96.06% digest efficiency by digitial counting and a digest efficiency of 96.3% by Bioanalyzer analysis Neisseria oralis ?
-
-
additional information BmtI displays 73.23% digest efficiency by digitial counting and a digest efficiency of 72.8% by Bioanalyzer analysis Priestia megaterium ?
-
-
additional information BamHI displays 98.53% digest efficiency by digitial counting and a digest efficiency of 98.1% by Bioanalyzer analysis Bacillus amyloliquefaciens ?
-
-
additional information XcmI displays 98.05% digest efficiency by digitial counting Xanthomonas campestris ?
-
-
additional information PflMI displays 96.03% digest efficiency by digitial counting Pseudomonas fluorescens ?
-
-
additional information BstEII displays 97.72% digest efficiency by digitial counting and a digest efficiency of 99.2% by Bioanalyzer analysis Geobacillus stearothermophilus ?
-
-
additional information NcoI displays 94.42% digest efficiency by digitial counting Gordonia rubripertincta ?
-
-
additional information BsrGI displays 93.78% digest efficiency by digitial counting and a digest efficiency of 97.7% by Bioanalyzer analysis Geobacillus stearothermophilus GR75 ?
-
-
additional information BmtI displays 73.23% digest efficiency by digitial counting and a digest efficiency of 72.8% by Bioanalyzer analysis Priestia megaterium S2 ?
-
-
mScarlet DNA + H2O
-
 Haemophilus parainfluenzae ?
-
 ?
mScarlet DNA + H2O
-
 Brevibacillus brevis ?
-
 ?
mScarlet DNA + H2O
-
 Lysinibacillus sphaericus ?
-
 ?
mScarlet DNA + H2O
-
 Acidithiobacillus ferrooxidans ?
-
 ?
mScarlet DNA + H2O
-
 Geobacillus stearothermophilus ?
-
 ?
mScarlet DNA + H2O
-
 Acetobacter aceti ?
-
 ?
mScarlet DNA + H2O
-
 Xanthomonas campestris pv. badrii ?
-
 ?
mScarlet DNA + H2O
-
 Bergeriella denitrificans ?
-
 ?
mScarlet DNA + H2O
-
 Neisseria oralis ?
-
 ?
mScarlet DNA + H2O
-
 Priestia megaterium ?
-
 ?
mScarlet DNA + H2O
-
 Bacillus amyloliquefaciens ?
-
 ?
mScarlet DNA + H2O
-
 Xanthomonas campestris ?
-
 ?
mScarlet DNA + H2O
-
 Pseudomonas fluorescens ?
-
 ?
mScarlet DNA + H2O
-
 Gordonia rubripertincta ?
-
 ?
mScarlet DNA + H2O
-
 Geobacillus stearothermophilus GR75 ?
-
 ?
mScarlet DNA + H2O
-
 Priestia megaterium S2 ?
-
 ?
mTurquoise2 DNA + H2O
-
 Haemophilus parainfluenzae ?
-
 ?
mTurquoise2 DNA + H2O
-
 Brevibacillus brevis ?
-
 ?
mTurquoise2 DNA + H2O
-
 Lysinibacillus sphaericus ?
-
 ?
mTurquoise2 DNA + H2O
-
 Acidithiobacillus ferrooxidans ?
-
 ?
mTurquoise2 DNA + H2O
-
 Geobacillus stearothermophilus ?
-
 ?
mTurquoise2 DNA + H2O
-
 Acetobacter aceti ?
-
 ?
mTurquoise2 DNA + H2O
-
 Xanthomonas campestris pv. badrii ?
-
 ?
mTurquoise2 DNA + H2O
-
 Bergeriella denitrificans ?
-
 ?
mTurquoise2 DNA + H2O
-
 Neisseria oralis ?
-
 ?
mTurquoise2 DNA + H2O
-
 Priestia megaterium ?
-
 ?
mTurquoise2 DNA + H2O
-
 Bacillus amyloliquefaciens ?
-
 ?
mTurquoise2 DNA + H2O
-
 Xanthomonas campestris ?
-
 ?
mTurquoise2 DNA + H2O
-
 Pseudomonas fluorescens ?
-
 ?
mTurquoise2 DNA + H2O
-
 Gordonia rubripertincta ?
-
 ?
mTurquoise2 DNA + H2O
-
 Geobacillus stearothermophilus GR75 ?
-
 ?
mTurquoise2 DNA + H2O
-
 Priestia megaterium S2 ?
-
 ?

Synonyms

Synonyms Comment Organism
AfeI
-
 Acidithiobacillus ferrooxidans
BamHI
-
 Bacillus amyloliquefaciens
BbsI
-
 Brevibacillus brevis
BmtI
-
 Priestia megaterium
BsgI
-
 Lysinibacillus sphaericus
BsrGI
-
 Geobacillus stearothermophilus
BstEII
-
 Geobacillus stearothermophilus
BstXI
-
 Geobacillus stearothermophilus
HpaI
-
 Haemophilus parainfluenzae
NcoI
-
 Gordonia rubripertincta
NdeI
-
 Bergeriella denitrificans
NheI
-
 Neisseria oralis
PflMI
-
 Pseudomonas fluorescens
StuI
-
 Acetobacter aceti
XbaI
-
 Xanthomonas campestris pv. badrii
XcmI
-
 Xanthomonas campestris

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.0037
-
 linear mNeonGreen DNA 37°C, pH not specified in the publication Bergeriella denitrificans

General Information

General Information Comment Organism
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Haemophilus parainfluenzae
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Brevibacillus brevis
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Lysinibacillus sphaericus
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Acidithiobacillus ferrooxidans
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Geobacillus stearothermophilus
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Acetobacter aceti
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Xanthomonas campestris pv. badrii
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Bergeriella denitrificans
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Neisseria oralis
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Priestia megaterium
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Bacillus amyloliquefaciens
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Xanthomonas campestris
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Pseudomonas fluorescens
metabolism measurement of restriction digest efficiency using digital cell-free protein synthesis. The quantitative measurements reveal a considerable variation in the digest efficiency among restriction endonucleases, from less than 70% to more than 99%. None of them shows truly complete digestion within reasonably long periods of reaction time Gordonia rubripertincta