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Literature summary for 3.1.11.5 extracted from
- recBC-like enzymes:exonuclease V deoxyribonucleases (1981), The Enzymes, 3rd Ed. (Boyer, P. D. , ed. ), 14, 233-250.
No PubMed abstract available
Activating Compound
| Activating Compound | Comment | Organism | Structure |
|---|---|---|---|
| dATP | nearly as effective as ATP | Escherichia coli |  |
Inhibitors
| Inhibitors | Comment | Organism | Structure |
|---|---|---|---|
| E. coli Bacteriophage proteins | - |
Escherichia coli | |
| E. coli single stranded DNA binding protein | SSB | Escherichia coli | |
| pyridoxal 5'-phosphate | - |
Escherichia coli | |
| small DNA fragments | - |
Bacillus subtilis | |
| thermostable protein | - |
Bacillus subtilis |
Metals/Ions
| Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|
| Mg2+ | required, optimal concentration around 3-12 mM | Alcaligenes faecalis | |
| Mg2+ | required, optimal concentration around 3-12 mM | Haemophilus influenzae | |
| Mg2+ | required, optimal concentration around 3-12 mM | Bacillus subtilis | |
| Mg2+ | required, optimal concentration around 3-12 mM | Escherichia coli | |
| Mg2+ | required, optimal concentration around 3-12 mM | Mycolicibacterium smegmatis | |
| Mg2+ | required, optimal concentration around 3-12 mM | Pseudomonas aeruginosa | |
| Mg2+ | required, optimal concentration around 3-12 mM | Streptococcus pneumoniae | |
| Mg2+ | required, optimal concentration around 3-12 mM | Bacillus cereus | |
| Mg2+ | required, optimal concentration around 3-12 mM | Micrococcus luteus | |
| Mg2+ | required, optimal concentration around 3-12 mM | Brevibacillus laterosporus | |
| Mn2+ | less effective than Mg2+ | Alcaligenes faecalis | |
| Mn2+ | less effective than Mg2+ | Haemophilus influenzae | |
| Mn2+ | less effective than Mg2+ | Bacillus subtilis | |
| Mn2+ | less effective than Mg2+ | Escherichia coli | |
| Mn2+ | less effective than Mg2+ | Mycolicibacterium smegmatis | |
| Mn2+ | less effective than Mg2+ | Pseudomonas aeruginosa | |
| Mn2+ | less effective than Mg2+ | Streptococcus pneumoniae | |
| Mn2+ | less effective than Mg2+ | Bacillus cereus | |
| Mn2+ | less effective than Mg2+ | Micrococcus luteus | |
| Mn2+ | less effective than Mg2+ | Brevibacillus laterosporus | |
Molecular Weight [Da]
| Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
|---|---|---|---|
| 42500 | - |
1 * 81000 + 1 * 70000 + 1 * 62000 + 1 * 52500 + 1 * 42500, no addition of protease inhibitor | Bacillus subtilis |
| 52500 | - |
1 * 81000 + 1 * 70000 + 1 * 62000 + 1 * 52500 + 1 * 42500, no addition of protease inhibitor | Bacillus subtilis |
| 60000 | - |
1 * 170000 + 1 * 60000, glycerol gradient sedimentation | Escherichia coli |
| 62000 | - |
1 * 81000 + 1 * 70000 + 1 * 62000 + 1 * 52500 + 1 * 42500, no addition of protease inhibitor | Bacillus subtilis |
| 68000 | - |
1 * 115000 + 1 * 107000 + 1 * 68000 | Haemophilus influenzae |
| 70000 | - |
1 * 81000 + 1 * 70000 + 1 * 62000 + 1 * 52500 + 1 * 42500, no addition of protease inhibitor | Bacillus subtilis |
| 81000 | - |
1 * 81000 + 1 * 70000 + 1 * 62000 + 1 * 52500 + 1 * 42500, no addition of protease inhibitor | Bacillus subtilis |
| 107000 | - |
1 * 115000 + 1 * 107000 + 1 * 68000 | Haemophilus influenzae |
| 115000 | - |
1 * 115000 + 1 * 107000 + 1 * 68000 | Haemophilus influenzae |
| 128000 | - |
1 * 140000 + 1 * 128000, dissociation by boiling, SDS-PAGE | Escherichia coli |
| 140000 | - |
1 * 140000 + 1 * 128000, dissociation by boiling, SDS-PAGE | Escherichia coli |
| 140000 | - |
1 * 155000 + 1 * 140000, protease inhibitor phenylmethylsulfonyl flouride was added | Bacillus subtilis |
| 155000 | - |
1 * 155000 + 1 * 140000, protease inhibitor phenylmethylsulfonyl flouride was added | Bacillus subtilis |
| 170000 | - |
1 * 170000 + 1 * 60000, glycerol gradient sedimentation | Escherichia coli |
| 270000 | - |
- |
Bacillus subtilis |
| 270000 | - |
- |
Escherichia coli |
| 290000 | - |
- |
Haemophilus influenzae |
| 300000 | - |
- |
Pseudomonas aeruginosa |
| 308000 | - |
- |
Bacillus subtilis |
| 350000 | - |
- |
Escherichia coli |
| 450000 | - |
- |
Strongylocentrotus intermedius |
Natural Substrates/ Products (Substrates)
| Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| ATP + H2O | Alcaligenes faecalis | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Haemophilus influenzae | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Bacillus subtilis | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Mycolicibacterium smegmatis | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Pseudomonas aeruginosa | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Streptococcus pneumoniae | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Bacillus cereus | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Micrococcus luteus | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Brevibacillus laterosporus | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Strongylocentrotus intermedius | - |
ADP + phosphate | - |
? | |
| ATP + H2O | Escherichia coli | DNA dependent | ADP + phosphate | - |
? | |
| double-stranded DNA + H2O | Alcaligenes faecalis | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Haemophilus influenzae | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Bacillus subtilis | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Mycolicibacterium smegmatis | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Pseudomonas aeruginosa | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Streptococcus pneumoniae | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Bacillus cereus | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Micrococcus luteus | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Brevibacillus laterosporus | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Strongylocentrotus intermedius | - |
single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Escherichia coli | ATP-dependent exonuclease | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | Escherichia coli | ATP-dependent helicase | single-stranded DNA fragments | - |
? | |
| single stranded DNA + H2O | Alcaligenes faecalis | - |
5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | Haemophilus influenzae | - |
5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | Mycolicibacterium smegmatis | - |
5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | Streptococcus pneumoniae | - |
5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | Bacillus cereus | - |
5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | Micrococcus luteus | - |
5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | Brevibacillus laterosporus | - |
5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | Escherichia coli | ATP-dependent exonuclease | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | Escherichia coli | ATP-dependent endonuclease | 5'-phosphomonoester oligonucleotides | - |
? | |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Alcaligenes faecalis | - |
- |
- |
| Bacillus cereus | - |
- |
- |
| Bacillus subtilis | - |
- |
- |
| Brevibacillus laterosporus | - |
- |
- |
| Escherichia coli | - |
mutants lacking the recB or recC or recD gene | - |
| Haemophilus influenzae | - |
- |
- |
| Micrococcus luteus | - |
Micrococcus luteus | - |
| Mycolicibacterium smegmatis | - |
- |
- |
| Pseudomonas aeruginosa | - |
- |
- |
| Streptococcus pneumoniae | - |
- |
- |
| Strongylocentrotus intermedius | - |
sea urchin | - |
Reaction
| Reaction | Comment | Organism | Reaction ID |
|---|---|---|---|
| Exonucleolytic cleavage (in the presence of ATP) in either 5'- to 3'- or 3'- to 5'-direction to yield 5'-phosphooligonucleotides | preference for double-stranded DNA, possesses DNA-dependent ATPase activity, acts endonucleolytically on single-stranded circular DNA | Escherichia coli |
Specific Activity [micromol/min/mg]
| Specific Activity Minimum [µmol/min/mg] | Specific Activity Maximum [µmol/min/mg] | Comment | Organism |
|---|---|---|---|
| 0.7 | - |
- |
Escherichia coli |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| ATP + H2O | - |
Alcaligenes faecalis | ADP + phosphate | - |
? | |
| ATP + H2O | - |
Haemophilus influenzae | ADP + phosphate | - |
? | |
| ATP + H2O | - |
Bacillus subtilis | ADP + phosphate | - |
? | |
| ATP + H2O | - |
Mycolicibacterium smegmatis | ADP + phosphate | - |
? | |
| ATP + H2O | - |
Pseudomonas aeruginosa | ADP + phosphate | - |
? | |
| ATP + H2O | - |
Streptococcus pneumoniae | ADP + phosphate | - |
? | |
| ATP + H2O | - |
Bacillus cereus | ADP + phosphate | - |
? | |
| ATP + H2O | - |
Micrococcus luteus | ADP + phosphate | - |
? | |
| ATP + H2O | - |
Brevibacillus laterosporus | ADP + phosphate | - |
? | |
| ATP + H2O | - |
Strongylocentrotus intermedius | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Alcaligenes faecalis | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Haemophilus influenzae | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Bacillus subtilis | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Escherichia coli | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Mycolicibacterium smegmatis | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Pseudomonas aeruginosa | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Streptococcus pneumoniae | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Bacillus cereus | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Micrococcus luteus | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Brevibacillus laterosporus | ADP + phosphate | - |
? | |
| ATP + H2O | linear DNA dependent | Strongylocentrotus intermedius | ADP + phosphate | - |
? | |
| ATP + H2O | complete inhibition of DNAse activity has no effect on ATPase activity | Escherichia coli | ADP + phosphate | - |
? | |
| ATP + H2O | DNA dependent | Escherichia coli | ADP + phosphate | - |
? | |
| double-stranded DNA | at presence of low Mg2+ | Haemophilus influenzae | intermediates with single stranded regions | - |
? | |
| double-stranded DNA | unwinding in the presence of E. coli binding protein SSB or high levels of ATP | Escherichia coli | intermediates with single stranded regions | - |
? | |
| double-stranded DNA + H2O | - |
Alcaligenes faecalis | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | - |
Haemophilus influenzae | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | - |
Bacillus subtilis | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | - |
Mycolicibacterium smegmatis | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | - |
Pseudomonas aeruginosa | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | - |
Streptococcus pneumoniae | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | - |
Bacillus cereus | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | - |
Micrococcus luteus | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | - |
Brevibacillus laterosporus | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | - |
Strongylocentrotus intermedius | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | no activity on circular DNA | Haemophilus influenzae | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | no activity on circular DNA | Bacillus subtilis | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | no activity on circular DNA | Escherichia coli | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | no activity on circular DNA | Micrococcus luteus | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Alcaligenes faecalis | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Haemophilus influenzae | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Bacillus subtilis | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Escherichia coli | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Mycolicibacterium smegmatis | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Pseudomonas aeruginosa | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Streptococcus pneumoniae | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Bacillus cereus | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Micrococcus luteus | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Brevibacillus laterosporus | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP dependent double-stranded DNA exonuclease | Strongylocentrotus intermedius | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP-dependent exonuclease | Escherichia coli | single-stranded DNA fragments | - |
? | |
| double-stranded DNA + H2O | ATP-dependent helicase | Escherichia coli | single-stranded DNA fragments | - |
? | |
| single stranded DNA + H2O | - |
Alcaligenes faecalis | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | - |
Haemophilus influenzae | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | - |
Mycolicibacterium smegmatis | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | - |
Streptococcus pneumoniae | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | - |
Bacillus cereus | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | - |
Micrococcus luteus | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | - |
Brevibacillus laterosporus | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | also endonuclease activity on circular DNA | Haemophilus influenzae | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | also endonuclease activity on circular DNA | Escherichia coli | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP dependence varies | Alcaligenes faecalis | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP dependence varies | Haemophilus influenzae | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP dependence varies | Bacillus subtilis | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP dependence varies | Escherichia coli | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP dependence varies | Mycolicibacterium smegmatis | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP dependence varies | Streptococcus pneumoniae | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP dependence varies | Bacillus cereus | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP dependence varies | Micrococcus luteus | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP dependence varies | Brevibacillus laterosporus | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | rate of degradation is less than double-stranded DNA | Alcaligenes faecalis | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | rate of degradation is less than double-stranded DNA | Haemophilus influenzae | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | rate of degradation is less than double-stranded DNA | Bacillus subtilis | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | rate of degradation is less than double-stranded DNA | Escherichia coli | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | rate of degradation is less than double-stranded DNA | Mycolicibacterium smegmatis | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | rate of degradation is less than double-stranded DNA | Streptococcus pneumoniae | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | rate of degradation is less than double-stranded DNA | Bacillus cereus | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | rate of degradation is less than double-stranded DNA | Micrococcus luteus | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | rate of degradation is less than double-stranded DNA | Brevibacillus laterosporus | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP-dependent exonuclease | Escherichia coli | 5'-phosphomonoester oligonucleotides | - |
? | |
| single stranded DNA + H2O | ATP-dependent endonuclease | Escherichia coli | 5'-phosphomonoester oligonucleotides | - |
? | |
Subunits
| Subunits | Comment | Organism |
|---|---|---|
| dimer | 1 * 140000 + 1 * 128000, dissociation by boiling, SDS-PAGE | Escherichia coli |
| dimer | 1 * 170000 + 1 * 60000, glycerol gradient sedimentation | Escherichia coli |
| dimer | 1 * 155000 + 1 * 140000, protease inhibitor phenylmethylsulfonyl flouride was added | Bacillus subtilis |
| pentamer | 1 * 81000 + 1 * 70000 + 1 * 62000 + 1 * 52500 + 1 * 42500, no addition of protease inhibitor | Bacillus subtilis |
| trimer | - |
Escherichia coli |
| trimer | 1 * 115000 + 1 * 107000 + 1 * 68000 | Haemophilus influenzae |
pH Optimum
| pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|
| 9 | - |
- |
Alcaligenes faecalis |
| 9 | - |
- |
Haemophilus influenzae |
| 9 | - |
- |
Bacillus subtilis |
| 9 | - |
- |
Escherichia coli |
| 9 | - |
- |
Mycolicibacterium smegmatis |
| 9 | - |
- |
Pseudomonas aeruginosa |
| 9 | - |
- |
Streptococcus pneumoniae |
| 9 | - |
- |
Bacillus cereus |
| 9 | - |
- |
Micrococcus luteus |
| 9 | - |
- |
Brevibacillus laterosporus |
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