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Literature summary extracted from

  • Brouns, S.J.; Turnbull, A.P.; Willemen, H.L.; Akerboom, J.; van der Oost, J.
    Crystal structure and biochemical properties of the D-arabinose dehydrogenase from Sulfolobus solfataricus (2007), J. Mol. Biol., 371, 1249-1260.
    View publication on PubMed

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
1.1.1.122 the structure is solved to a resolution of 1.80 A by single-wavelength anomalous diffraction and phased using the two endogenous zinc ions per subunit. The structure reveals a catalytic and cofactor binding domain Saccharolobus solfataricus
1.1.1.427 the structure is solved to a resolution of 1.80 A by single-wavelength anomalous diffraction and phased using the two endogenous zinc ions per subunit. The structure reveals a catalytic and cofactor binding domain Saccharolobus solfataricus

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
1.1.1.427 0.038
-
 NADP+ pH 7.5, 70°C, determined with 10 mM D-arabinose Saccharolobus solfataricus
1.1.1.427 0.22
-
 L-fucose pH 7.5, 70°C, determined with 0.4 mM NADP+ Saccharolobus solfataricus
1.1.1.427 1.25
-
 NAD+ pH 7.5, 70°C, determined with 10 mM D-arabinose Saccharolobus solfataricus
1.1.1.427 1.4
-
 D-arabinose pH 7.5, 70°C, determined with 0.4 mM NADP+ Saccharolobus solfataricus

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
1.1.1.122 Zn2+ contains two endogenous zinc ions per subunit.A zinc ion is bound in the loop that protrudes from the catalytic domain. This zinc is tetrahedrally coordinated by residues D94, C97, C100 and C108 Saccharolobus solfataricus
1.1.1.427 Zn2+ contains two endogenous zinc ions per subunit.A zinc ion is bound in the loop that protrudes from the catalytic domain. This zinc is tetrahedrally coordinated by residues D94, C97, C100 and C108 Saccharolobus solfataricus

Organism

EC Number Organism UniProt Comment Textmining
1.1.1.122 Saccharolobus solfataricus Q97YM2
-
-
1.1.1.122 Saccharolobus solfataricus P2 Q97YM2
-
-
1.1.1.427 Saccharolobus solfataricus Q97YM2
-
-
1.1.1.427 Saccharolobus solfataricus P2 Q97YM2
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
1.1.1.427
-
 Saccharolobus solfataricus

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
1.1.1.122 6-deoxy-L-galactose + NAD+ i.e. L-fucose. The enzyme is specific for sugars with D-arabinose-type hydroxyl group stereo-configurations at C3 and C4. This configuration is shared among the hexoses L-fucose (6-deoxy-L-galactose) and L-galactose, and the pentose D-ribose. Although the highest activity is observed with L-fucose in combination with NAD+, the remaining sugars are oxidized at higher rates using NADP+ Saccharolobus solfataricus 6-deoxy-L-galactono-1,5-lactone + NADH
-
 ?
1.1.1.122 6-deoxy-L-galactose + NAD+ i.e. L-fucose. The enzyme is specific for sugars with D-arabinose-type hydroxyl group stereo-configurations at C3 and C4. This configuration is shared among the hexoses L-fucose (6-deoxy-L-galactose) and L-galactose, and the pentose D-ribose. Although the highest activity is observed with L-fucose in combination with NAD+, the remaining sugars are oxidized at higher rates using NADP+ Saccharolobus solfataricus P2 6-deoxy-L-galactono-1,5-lactone + NADH
-
 ?
1.1.1.427 D-arabinose + NAD+
-
 Saccharolobus solfataricus D-arabinono-1,4-lactone + NADH + H+
-
 ?
1.1.1.427 D-arabinose + NAD+
-
 Saccharolobus solfataricus P2 D-arabinono-1,4-lactone + NADH + H+
-
 ?
1.1.1.427 D-arabinose + NADP+
-
 Saccharolobus solfataricus D-arabinono-1,4-lactone + NADPH + H+
-
 ?
1.1.1.427 D-arabinose + NADP+
-
 Saccharolobus solfataricus P2 D-arabinono-1,4-lactone + NADPH + H+
-
 ?
1.1.1.427 D-ribose + NADP+
-
 Saccharolobus solfataricus D-ribonolactone + NADPH
-
 ?
1.1.1.427 L-fucose + NADP+
-
 Saccharolobus solfataricus L-fuconolactone + NADPH + H+
-
 ?
1.1.1.427 L-fucose + NADP+
-
 Saccharolobus solfataricus P2 L-fuconolactone + NADPH + H+
-
 ?
1.1.1.427 L-galactose + NADP+
-
 Saccharolobus solfataricus L-galactonolactone + NADPH
-
 ?
1.1.1.427 additional information the enzyme is specific for sugars with D-arabinose-type hydroxyl group stereo-configurations at C3 and C4. Negligible activity with D-glucose, D-galactose, D-fucose, L-arabinose and D-xylose Saccharolobus solfataricus ?
-
 ?
1.1.1.427 additional information the enzyme is specific for sugars with D-arabinose-type hydroxyl group stereo-configurations at C3 and C4. Negligible activity with D-glucose, D-galactose, D-fucose, L-arabinose and D-xylose Saccharolobus solfataricus P2 ?
-
 ?

Subunits

EC Number Subunits Comment Organism
1.1.1.122 homotetramer
-
 Saccharolobus solfataricus
1.1.1.427 homotetramer
-
 Saccharolobus solfataricus

Synonyms

EC Number Synonyms Comment Organism
1.1.1.427 AraDH
-
 Saccharolobus solfataricus

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
1.1.1.427 70
-
 assay at Saccharolobus solfataricus
1.1.1.427 91
-
-
 Saccharolobus solfataricus

Temperature Range [°C]

EC Number Temperature Minimum [°C] Temperature Maximum [°C] Comment Organism
1.1.1.427 70 100 70°C: about 40% of maximal activity, 100°C: about 90% of maximal activity Saccharolobus solfataricus

Temperature Stability [°C]

EC Number Temperature Stability Minimum [°C] Temperature Stability Maximum [°C] Comment Organism
1.1.1.427 85
-
 half-life: 42 min Saccharolobus solfataricus
1.1.1.427 90
-
 half-life: 26 min Saccharolobus solfataricus

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
1.1.1.427 7.5
-
 assay at Saccharolobus solfataricus
1.1.1.427 8.2
-
-
 Saccharolobus solfataricus

pH Range

EC Number pH Minimum pH Maximum Comment Organism
1.1.1.427 7.1 9.1 pH 7.1: about 40% of maximal activity, pH 9.1: about 60% of maximal activity, pH 9.5: about 30% of maximal activity Saccharolobus solfataricus

Cofactor

EC Number Cofactor Comment Organism Structure
1.1.1.122 NAD+ the enzyme is specific for sugars with D-arabinose-type hydroxyl group stereo-configurations at C3 and C4. This configuration is shared among the hexoses L-fucose (6-deoxy-L-galactose) and L-galactose, and the pentose D-ribose. Although the highest activity is observed with L-fucose in combination with NAD+, the remaining sugars are oxidized at higher rates using NADP+ Saccharolobus solfataricus
1.1.1.427 NAD+ the catalytic efficiency of NADP+ in combination with D-arabinose is 36-fold higher than that of NAD+ Saccharolobus solfataricus
1.1.1.427 NADP+ the catalytic efficiency of NADP+ in combination with D-arabinose is 36-fold higher than that of NAD+ Saccharolobus solfataricus

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
1.1.1.427 10.6
-
 D-arabinose pH 7.5, 70°C, determined with 0.4 mM NADP+ Saccharolobus solfataricus
1.1.1.427 14.5
-
 NAD+ pH 7.5, 70°C, determined with 10 mM D-arabinose Saccharolobus solfataricus
1.1.1.427 67
-
 L-fucose pH 7.5, 70°C, determined with 0.4 mM NADP+ Saccharolobus solfataricus
1.1.1.427 525
-
 NADP+ pH 7.5, 70°C, determined with 10 mM D-arabinose Saccharolobus solfataricus