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Literature summary for 3.1.4.56 extracted from
- An Fe2+-dependent cyclic phosphodiesterase catalyzes the hydrolysis of 7,8-dihydro-D-neopterin 2',3'-cyclic phosphate in methanopterin biosynthesis (2009), Biochemistry, 48, 9384-9392.
Cloned(Commentary)
| Cloned (Comment) | Organism |
|---|---|
| expression in Escherichia coli | Methanocaldococcus jannaschii |
Protein Variants
| Protein Variants | Comment | Organism |
|---|---|---|
| D167N | reduced activities when assayed with bis(4-nitrophenyl) phosphate, 2',3'-cAMP or 7,8-dihydroneopterin 2',3'-cyclic phosphate | Methanocaldococcus jannaschii |
| H61N | reduced activities when assayed with bis(4-nitrophenyl) phosphate, 2',3'-cAMP or 7,8-dihydroneopterin 2',3'-cyclic phosphate | Methanocaldococcus jannaschii |
| H96N | mutant shows about 1.9-fold higher specific activity with bis(4-nitrophenyl) phosphate than that of the wild type | Methanocaldococcus jannaschii |
Metals/Ions
| Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|
| Co2+ | 0.75 mM Mn2+ shows a 6fold activation of hydrolysis of bis(4-nitrophenyl) phosphate | Methanocaldococcus jannaschii |  |
| Fe2+ | the enzyme contains one atom of both zinc and iron per protomer. The enzyme requires Fe2+ for activity. After the addition of 1.4 mM Fe2+ the enzyme shows a specific activity of 29 nmol/min*mg for the hydrolysis of 7,8-dihydro-D-neopterin 2',3'-cyclic phosphate. 0.75 mM Fe2+ shows a 185fold activation of hydrolysis of bis(4-nitrophenyl) phosphate | Methanocaldococcus jannaschii | |
| Mn2+ | 0.75 mM Mn2+ shows a 215fold activation of hydrolysis of bis(4-nitrophenyl) phosphate | Methanocaldococcus jannaschii | |
| additional information | no activation of hydrolysis of bis(4-nitrophenyl) phosphate by Mg2+, Zn2+ or Fe3+ | Methanocaldococcus jannaschii | |
| Ni2+ | 0.75 mM Mn2+ shows a 1.5fold activation of hydrolysis of bis(4-nitrophenyl) phosphate | Methanocaldococcus jannaschii | |
Molecular Weight [Da]
| Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
|---|---|---|---|
| 28500 | - |
12 * 28500, calculated from sequence | Methanocaldococcus jannaschii |
| 370000 | - |
gel filtration | Methanocaldococcus jannaschii |
Natural Substrates/ Products (Substrates)
| Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| 7,8-dihydroneopterin 2',3'-cyclic phosphate + H2O | Methanocaldococcus jannaschii | the enzyme is involved in methanopterin biosynthesis | 7,8-dihydroneopterin 3'-phosphate | - |
? | |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Methanocaldococcus jannaschii | Q58247 | - |
- |
Oxidation Stability
| Oxidation Stability | Organism |
|---|---|
| oxygen inactivation with a half-life of about 5 min | Methanocaldococcus jannaschii |
Purification (Commentary)
| Purification (Comment) | Organism |
|---|---|
- |
Methanocaldococcus jannaschii |
Reaction
| Reaction | Comment | Organism | Reaction ID |
|---|---|---|---|
| 7,8-dihydroneopterin 2',3'-cyclic phosphate + H2O = 7,8-dihydroneopterin 2'-phosphate | (2) | Methanocaldococcus jannaschii | |
| 7,8-dihydroneopterin 2',3'-cyclic phosphate + H2O = 7,8-dihydroneopterin 3'-phosphate | (1) | Methanocaldococcus jannaschii |
Specific Activity [micromol/min/mg]
| Specific Activity Minimum [µmol/min/mg] | Specific Activity Maximum [µmol/min/mg] | Comment | Organism |
|---|---|---|---|
| 0.003 | - |
0.75 mM Ni2, pH 7.2, 70°C, hydrolysis of bis(4-nitrophenyl) phosphate | Methanocaldococcus jannaschii |
| 0.012 | - |
0.75 mM Co2+, pH 7.2, 70°C, hydrolysis of bis(4-nitrophenyl) phosphate | Methanocaldococcus jannaschii |
| 0.029 | - |
1.4 mM Fe2+, pH 7.2, 70°C, hydrolysis of 7,8-dihydroneopterin 2',3'-cyclic phosphate | Methanocaldococcus jannaschii |
| 0.37 | - |
0.75 mM Fe2+, pH 7.2, 70°C, hydrolysis of bis(4-nitrophenyl) phosphate | Methanocaldococcus jannaschii |
| 0.43 | - |
0.75 mM Mn2+, pH 7.2, 70°C, hydrolysis of bis(4-nitrophenyl) phosphate | Methanocaldococcus jannaschii |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| 2',3'-cAMP + H2O | - |
Methanocaldococcus jannaschii | 3'-AMP | - |
? | |
| 7,8-dihydroneopterin 2',3'-cyclic phosphate + H2O | the enzyme is involved in methanopterin biosynthesis | Methanocaldococcus jannaschii | 7,8-dihydroneopterin 3'-phosphate | - |
? | |
| 7,8-dihydroneopterin 2',3'-cyclic phosphate + H2O | the enzyme hydrolyses 7,8-dihydroneopterin 2',3'-cyclic phosphate and converts it to a mixture of 7,8-dihydroneopterin 3'-phosphate and 7,8-dihydroneopterin 2'-phosphate. In vitro the ratio of 7,8-dihydroneopterin 3'-phosphate to 7,8-dihydroneopterin 2'-phosphate is 1:4 | Methanocaldococcus jannaschii | 7,8-dihydroneopterin 3'-phosphate | - |
? | |
| 7,8-dihydroneopterin 2',3'-cyclic phosphate + H2O | the enzyme hydrolyses 7,8-dihydroneopterin 2',3'-cyclic phosphate and converts it to a mixture of 7,8-dihydroneopterin 3'-phosphate and 7,8-dihydroneopterin 2'-phosphate. In vitro the ratio of 7,8-dihydroneopterin 3'-phosphate to 7,8-dihydroneopterin 2'-phosphate is 1:4 | Methanocaldococcus jannaschii | 7,8-dihydroneopterin 2'-phosphate | - |
? | |
| bis(4-nitrophenyl) phosphate + H2O | - |
Methanocaldococcus jannaschii | 4-nitrophenyl phosphate + 4-nitrophenol | - |
? | |
| additional information | no substrates: ATP, 3',5'-cAMP, GTP, 3',5'-cGMP, and 4',5'-cFMN | Methanocaldococcus jannaschii | ? | - |
? | |
| O-(4-nitrophenylphosphoryl)choline + H2O | - |
Methanocaldococcus jannaschii | 4-nitrophenyl phosphate + choline | - |
? | |
Subunits
| Subunits | Comment | Organism |
|---|---|---|
| homododecamer | 12 * 28500, calculated from sequence | Methanocaldococcus jannaschii |
| homododecamer | 12 * 29000-30000, SDS-PAGE | Methanocaldococcus jannaschii |
Synonyms
| Synonyms | Comment | Organism |
|---|---|---|
| MJ0837 gene product | - |
Methanocaldococcus jannaschii |
| MptB | - |
Methanocaldococcus jannaschii |
Temperature Optimum [°C]
| Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
|---|---|---|---|
| 70 | - |
assay at | Methanocaldococcus jannaschii |
Temperature Stability [°C]
| Temperature Stability Minimum [°C] | Temperature Stability Maximum [°C] | Comment | Organism |
|---|---|---|---|
| 70 | 100 | after heating for 45 min in absence of Mn2+ the activity of the enzyme drops about 30% from the 70°C heated sample to the 100°C heated sample. In the presence of Mn2+, in the case of 45 min heating the activity of the enzyme increases about 53%from the 70°C heated sample to the 100°C heated sample. In the case of 2.5 h heating the activity of the enzyme drops about 26% from the 70°C heated sample to the 100°C heated sample. Adding Mn2+ to the enzyme increases the temperature stability of the protein | Methanocaldococcus jannaschii |
pH Optimum
| pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|
| 7.2 | - |
assay at | Methanocaldococcus jannaschii |
| 7.5 | - |
CHES buffer | Methanocaldococcus jannaschii |
pH Range
| pH Minimum | pH Maximum | Comment | Organism |
|---|---|---|---|
| 6.5 | 8.5 | pH 6.5: about 50% of maximal activity, pH 8.5: about 45% of maximal activity | Methanocaldococcus jannaschii |
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