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Literature summary extracted from

  • Aono, R.; Sato, T.; Imanaka, T.; Atomi, H.
    A pentose bisphosphate pathway for nucleoside degradation in Archaea (2015), Nat. Chem. Biol., 11, 355-360.
    View publication on PubMed

Inhibitors

EC Number Inhibitors Comment Organism Structure
2.7.1.213 cytidine substrate inhibition Thermococcus kodakarensis

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
2.7.1.212 0.53
-
alpha-D-ribose 1-phosphate presence of Mg2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 0.53
-
alpha-D-ribose-1-phosphate presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 4.19 8.37 ADP depending on the presence of Ca2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 4.2
-
ADP presence of Ca2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 7.3
-
ADP presence of Mg2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 7.3
-
ADP presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 12
-
2-deoxy-alpha-D-ribose 1-phosphate presence of Mg2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 12
-
2-deoxy-alpha-D-ribose-1-phosphate presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 19
-
GDP presence of Mg2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 19
-
GDP presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.213 1.71
-
cytidine pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.213 4.11
-
3'-deoxycytidine pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.213 5.72
-
ATP pH and temperature not specified in the publication Thermococcus kodakarensis

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
2.7.1.212 Ca2+ divalent cation required, Mg2+ and Ca2+ are the most preferred. 107% of the activtiy with Mg2+ Thermococcus kodakarensis
2.7.1.212 Co2+ 59% of the activtiy with Mg2+ Thermococcus kodakarensis
2.7.1.212 Mg2+ divalent cation required, Mg2+ and Ca2+ are the most preferred Thermococcus kodakarensis
2.7.1.212 additional information activities with Mn2+, Ni2+, Zn2+ and Cu2+ are all less than 20% of that with Mg2+ Thermococcus kodakarensis
2.7.1.213 Co2+ 26% activity compared to Mg2+ Thermococcus kodakarensis
2.7.1.213 KCl 300 mM, 3.6fold increase of activity Thermococcus kodakarensis
2.7.1.213 Mg2+ most preferred divalent metal ion Thermococcus kodakarensis
2.7.1.213 Mn2+ 68% activity compared to Mg2+ Thermococcus kodakarensis
2.7.1.213 additional information ca2+, Ni2+, Zn2+, cu2+ show less than 20% avtivation Thermococcus kodakarensis

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2.7.1.212 ADP + alpha-D-ribose-1-phosphate Thermococcus kodakarensis
-
AMP + alpha-D-ribose 1,5-bisphosphate
-
?
2.7.1.212 alpha-D-ribose 1-phosphate + ADP Thermococcus kodakarensis
-
alpha-D-ribose 1,5-bisphosphate + AMP
-
ir
2.7.1.213 cytidine + ATP Thermococcus kodakarensis
-
CMP + ADP
-
?

Organism

EC Number Organism UniProt Comment Textmining
2.7.1.212 Thermococcus kodakarensis Q5JDG9
-
-
2.7.1.213 Thermococcus kodakarensis Q5JEK6
-
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.7.1.212 2-deoxy-alpha-D-ribose 1-phosphate + ADP
-
Thermococcus kodakarensis 2-deoxy-alpha-D-ribose 1,5-bisphosphate + AMP
-
ir
2.7.1.212 ADP + 2-deoxy-alpha-D-ribose-1-phosphate
-
Thermococcus kodakarensis AMP + 2-deoxy-alpha-D-ribose 1,5-bisphosphate
-
?
2.7.1.212 ADP + alpha-D-ribose-1-phosphate
-
Thermococcus kodakarensis AMP + alpha-D-ribose 1,5-bisphosphate
-
?
2.7.1.212 alpha-D-ribose 1-phosphate + ADP
-
Thermococcus kodakarensis alpha-D-ribose 1,5-bisphosphate + AMP
-
ir
2.7.1.212 alpha-D-ribose 1-phosphate + ADP irreversible under physiological conditions Thermococcus kodakarensis alpha-D-ribose 1,5-bisphosphate + AMP irreversible under physiological conditions ir
2.7.1.212 alpha-D-ribose 1-phosphate + GDP irreversible under physiological conditions Thermococcus kodakarensis alpha-D-ribose 1,5-bisphosphate + GMP
-
ir
2.7.1.212 GDP + alpha-D-ribose-1-phosphate 56% of the activity with ADP Thermococcus kodakarensis GMP + alpha-D-ribose 1,5-bisphosphate
-
?
2.7.1.212 additional information no substrates: CDP, diphosphate Thermococcus kodakarensis ?
-
?
2.7.1.212 UDP + alpha-D-ribose-1-phosphate 9% of the activity with ADP Thermococcus kodakarensis UMP + alpha-D-ribose 1,5-bisphosphate
-
?
2.7.1.213 3'-deoxycytidine + ATP
-
Thermococcus kodakarensis 3'-dCMP + ADP
-
?
2.7.1.213 cytidine + ATP
-
Thermococcus kodakarensis CMP + ADP
-
?
2.7.1.213 cytidine + CTP 30% activity with CTP compared to ATP Thermococcus kodakarensis CMP + CDP
-
?
2.7.1.213 cytidine + GTP 70% activity with GTP compared to ATP Thermococcus kodakarensis CMP + GDP
-
?
2.7.1.213 cytidine + UTP 30% activity with UTP compared to ATP Thermococcus kodakarensis CMP + UDP
-
?
2.7.1.213 uridine + ATP
-
Thermococcus kodakarensis UMP + ADP
-
?

Synonyms

EC Number Synonyms Comment Organism
2.7.1.212 ADP-dependent ribose-1-phosphate kinase
-
Thermococcus kodakarensis
2.7.1.212 TK2029
-
Thermococcus kodakarensis
2.7.1.212 TK2029 locus name Thermococcus kodakarensis
2.7.1.213 TK1843 locus name Thermococcus kodakarensis

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
2.7.1.212 85
-
-
Thermococcus kodakarensis
2.7.1.213 90
-
-
Thermococcus kodakarensis

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
2.7.1.212 73
-
2-deoxy-alpha-D-ribose 1-phosphate presence of Mg2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 73
-
2-deoxy-alpha-D-ribose-1-phosphate presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 189
-
GDP presence of Mg2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 189
-
GDP presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 485
-
alpha-D-ribose 1-phosphate presence of Mg2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 485
-
alpha-D-ribose-1-phosphate presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 612
-
ADP presence of Mg2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 612
-
ADP presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 856 1160 ADP depending on the presence of Ca2+, pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 856
-
ADP presence of Ca2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.213 222
-
ATP pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.213 226
-
3'-deoxycytidine pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.213 280
-
cytidine pH and temperature not specified in the publication Thermococcus kodakarensis

pH Range

EC Number pH Minimum pH Maximum Comment Organism
2.7.1.212 5 8
-
Thermococcus kodakarensis
2.7.1.213 5 9
-
Thermococcus kodakarensis

Ki Value [mM]

EC Number Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
2.7.1.213 29.3
-
cytidine pH and temperature not specified in the publication Thermococcus kodakarensis

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
2.7.1.212 6.3
-
2-deoxy-alpha-D-ribose-1-phosphate presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 10.2
-
GDP presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 83.6
-
ADP presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 204
-
ADP presence of Ca2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.212 915
-
alpha-D-ribose-1-phosphate presence of Mg2+, pH not specified in the publication, temperature not specified in the publication Thermococcus kodakarensis
2.7.1.213 38.8
-
ATP pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.213 55
-
3'-deoxycytidine pH and temperature not specified in the publication Thermococcus kodakarensis
2.7.1.213 164
-
cytidine pH and temperature not specified in the publication Thermococcus kodakarensis