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Literature summary for 3.1.4.1 extracted from
- Purification and characterization of 5'-phosphodiesterase from barley rootlets (1993), Biochem. Mol. Biol. Int., 29, 1095-1102.
Inhibitors
| Inhibitors | Comment | Organism | Structure |
|---|---|---|---|
| 2-mercaptoethanol | - |
Hordeum vulgare |  |
| 5'-deoxyribonucleotides | end-product inhibition | Hordeum vulgare | |
| 5'-nucleotides | end-product inhibition | Hordeum vulgare | |
| 5'-ribonucleotides | end-product inhibition | Hordeum vulgare | |
| Cu2+ | - |
Hordeum vulgare | |
| CuSO4 | - |
Hordeum vulgare | |
| EDTA | - |
Hordeum vulgare | |
| glutathione | - |
Hordeum vulgare | |
| KF | slight inhibition | Hordeum vulgare | |
| L-cysteine | - |
Hordeum vulgare | |
| Reducing agents | - |
Hordeum vulgare | |
| Zn2+ | - |
Hordeum vulgare | |
| ZnSO4 | slight inhibition | Hordeum vulgare | |
KM Value [mM]
| KM Value [mM] | KM Value Maximum [mM] | Substrate | Comment | Organism | Structure |
|---|---|---|---|---|---|
| 0.28 | - |
p-nitrophenylthymidine 5'-phosphate | - |
Hordeum vulgare | |
Metals/Ions
| Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|
| (NH4)2SO4 | slight activation | Hordeum vulgare | |
| Ca2+ | slight activation | Hordeum vulgare | |
| divalent cations | required for activity | Hordeum vulgare | |
| K+ | slight activation | Hordeum vulgare | |
| KCl | slight activation | Hordeum vulgare | |
| Mg2+ | activation | Hordeum vulgare | |
| MgCl2 | activation | Hordeum vulgare | |
| Na+ | slight activation | Hordeum vulgare | |
| NaCl | slight activation | Hordeum vulgare | |
| NH4Cl | slight activation | Hordeum vulgare | |
Molecular Weight [Da]
| Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
|---|---|---|---|
| 52000 | - |
52000 + 34000 + 16000, PDE might be a dimer with two 52000 subunits, or a heterologous trimer composed of 52000, 34000 and 16000 subunits, in the former case, one of the subunits is nicked and produced the 34000 + 16000 subunits, SDS-PAGE | Hordeum vulgare |
| 100000 | - |
gel filtration and PAGE | Hordeum vulgare |
Natural Substrates/ Products (Substrates)
| Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| additional information | Hordeum vulgare | the physiological function of PDE in plant cell is presumably the degradation of nucleic acids | ? | - |
? | |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Hordeum vulgare | - |
barley | - |
Purification (Commentary)
| Purification (Comment) | Organism |
|---|---|
- |
Hordeum vulgare |
Source Tissue
| Source Tissue | Comment | Organism | Textmining |
|---|---|---|---|
| root | rootlet | Hordeum vulgare | - |
Specific Activity [micromol/min/mg]
| Specific Activity Minimum [µmol/min/mg] | Specific Activity Maximum [µmol/min/mg] | Comment | Organism |
|---|---|---|---|
| 51.8 | - |
- |
Hordeum vulgare |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| DNA + H2O | denatured DNA. Native DNA is resistant | Hordeum vulgare | DNA(n-1) + 2'-deoxynucleoside 5'-phosphate | - |
? | |
| additional information | the physiological function of PDE in plant cell is presumably the degradation of nucleic acids | Hordeum vulgare | ? | - |
? | |
| oligonucleotides + H2O | specific for 3'-5'-direction from the 3'-hydroxyl terminal in a stepwise manner | Hordeum vulgare | oligonucleotides(n-1) + 5'-mononucleotides | - |
? | |
| p-nitrophenylthymidine 5'-phosphate + H2O | - |
Hordeum vulgare | 5'-TMP + p-nitrophenol | - |
? | |
| polynucleotides + H2O | specific for 3'-5'-direction from the 3'-hydroxyl terminal in a stepwise manner | Hordeum vulgare | polynucleotides(n-1) + 5'-mononucleotides | - |
? | |
| RNA + H2O | - |
Hordeum vulgare | RNA(n-1) + nucleoside 5'-phosphate | - |
? | |
Subunits
| Subunits | Comment | Organism |
|---|---|---|
| dimer | 52000 + 34000 + 16000, PDE might be a dimer with two 52000 subunits, or a heterologous trimer composed of 52000, 34000 and 16000 subunits, in the former case, one of the subunits is nicked and produced the 34000 + 16000 subunits, SDS-PAGE | Hordeum vulgare |
| trimer | 52000 + 34000 + 16000, PDE might be a dimer with two 52000 subunits, or a heterologous trimer composed of 52000, 34000 and 16000 subunits, in the former case, one of the subunits is nicked and produced the 34000 + 16000 subunits, SDS-PAGE | Hordeum vulgare |
Synonyms
| Synonyms | Comment | Organism |
|---|---|---|
| 5'-PDE | - |
Hordeum vulgare |
| PDE I | - |
Hordeum vulgare |
pH Optimum
| pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|
| 9.5 | - |
- |
Hordeum vulgare |
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