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Literature summary extracted from

  • Yoon, R.Y.; Yeom, S.J.; Kim, H.J.; Oh, D.K.
    Novel substrates of a ribose-5-phosphate isomerase from Clostridium thermocellum (2009), J. Biotechnol., 139, 26-32.
    View publication on PubMed

Cloned(Commentary)

EC Number Cloned (Comment) Organism
5.3.1.6 expressed in Escherichia coli ER2566 cells Acetivibrio thermocellus
5.3.1.6 gene rpiB, expression in Escherichia coli strain ER2566 Acetivibrio thermocellus

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
5.3.1.6 additional information
-
additional information kinetics with aldose and ketose substrates, recombinant enzyme, overview Acetivibrio thermocellus
5.3.1.6 0.015
-
D-ribulose 5-phosphate pH 7.5, 65°C, recombinant enzyme Acetivibrio thermocellus
5.3.1.6 0.017
-
D-ribose 5-phosphate pH 7.5, 65°C, recombinant enzyme Acetivibrio thermocellus
5.3.1.6 15
-
D-ribulose 5-phosphate in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 17
-
D-ribose 5-phosphate in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 34
-
D-ribulose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 37
-
L-talose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 44
-
D-ribose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 53
-
D-psicose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 98
-
L-allose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 106
-
D-allose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 125
-
L-tagatose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 173
-
L-ribose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 232
-
D-talose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 319
-
L-ribulose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
5.3.1.6 17000
-
2 * 17000, gel filtration Acetivibrio thermocellus
5.3.1.6 34000
-
gel filtration Acetivibrio thermocellus

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
5.3.1.6 D-ribose 5-phosphate Acetivibrio thermocellus preferred substrate D-ribulose 5-phosphate
-
r

Organism

EC Number Organism UniProt Comment Textmining
5.3.1.6 Acetivibrio thermocellus
-
-
-
5.3.1.6 Acetivibrio thermocellus
-
RpiB; gene rpiB
-

Purification (Commentary)

EC Number Purification (Comment) Organism
5.3.1.6 HisTrap HP column chromatography Acetivibrio thermocellus
5.3.1.6 recombinant RpiB from Escherichia coli strain ER2566 by His affinity chromatography Acetivibrio thermocellus

Specific Activity [micromol/min/mg]

EC Number Specific Activity Minimum [µmol/min/mg] Specific Activity Maximum [µmol/min/mg] Comment Organism
5.3.1.6 0.21
-
purified enzyme, using D-tagatose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 0.53
-
purified enzyme, using L-allose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 12
-
purified enzyme, using L-psicose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 50
-
purified enzyme, using D-talose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 272
-
purified enzyme, using L-ribose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 600
-
purified enzyme, using L-allose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 720
-
purified enzyme, using L-ribulose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 1037
-
purified enzyme, using D-psicose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 1037
-
purified recombinant enzyme, substrate D-psicose Acetivibrio thermocellus
5.3.1.6 1352
-
purified enzyme, using D-allose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 1352
-
purified recombinant enzyme, substrate D-allose Acetivibrio thermocellus
5.3.1.6 5374
-
purified enzyme, using D-ribulose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 5374
-
purified recombinant enzyme, substrate D-ribulose Acetivibrio thermocellus
5.3.1.6 5800
-
purified enzyme, using D-ribose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 5800
-
purified recombinant enzyme, substrate D-ribose Acetivibrio thermocellus
5.3.1.6 7363
-
purified enzyme, using L-talose as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 7363
-
purified recombinant enzyme, substrate L-talose Acetivibrio thermocellus
5.3.1.6 19680
-
purified enzyme, using D-ribulose 5-phosphate as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 19680
-
purified recombinant enzyme, substrate D-ribulose 5-phosphate Acetivibrio thermocellus
5.3.1.6 25690
-
purified enzyme, using D-ribose 5-phosphate as substrate, at 65°C and pH 7.5 Acetivibrio thermocellus
5.3.1.6 25690
-
purified recombinant enzyme, substrate D-ribose 5-phosphate Acetivibrio thermocellus

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
5.3.1.6 D-allose
-
Acetivibrio thermocellus D-psicose
-
r
5.3.1.6 D-ribose
-
Acetivibrio thermocellus D-ribulose 38% conversion to D-ribose 5-phosphate yield after approximately 90 min r
5.3.1.6 D-ribose 39% conversion yield after approximately 90 min Acetivibrio thermocellus D-ribulose
-
r
5.3.1.6 D-ribose 5-phosphate
-
Acetivibrio thermocellus D-ribulose 5-phosphate
-
r
5.3.1.6 D-ribose 5-phosphate preferred substrate Acetivibrio thermocellus D-ribulose 5-phosphate
-
r
5.3.1.6 D-ribose 5-phosphate preferred substrate Acetivibrio thermocellus D-ribulose 5-phosphate 38% conversion to D-ribose 5-phosphate yield after approximately 90 min at 50°C r
5.3.1.6 D-talose
-
Acetivibrio thermocellus D-tagatose
-
r
5.3.1.6 L-allose
-
Acetivibrio thermocellus L-psicose
-
r
5.3.1.6 L-ribose
-
Acetivibrio thermocellus L-ribulose
-
r
5.3.1.6 L-talose 89% conversion yield after approximately 90 min Acetivibrio thermocellus L-tagatose
-
r
5.3.1.6 L-talose the enzyme prefers the forward reaction, high activity, 89% conversion to L-tagatose yield after approximately 90 min at 50°C Acetivibrio thermocellus L-tagatose
-
r
5.3.1.6 additional information RpiB also displays activity with L-talose, D-ribose, D-allose, L-allose, L-ribose, and D-talose in decreasing order. The enzyme shows specificity for aldose substrates possessing hydroxyl groups oriented in the same direction at the C2, C3, and C4 positions. The substrate specificity through substrate interactions with residues Tyr42, His98, and His9, which interact with the hydroxyl groups of C2, C3, and C4, respectively, oriented in the same direction, homology molecular modeling, overview Acetivibrio thermocellus ?
-
?

Subunits

EC Number Subunits Comment Organism
5.3.1.6 homodimer 2 * 17000, gel filtration Acetivibrio thermocellus
5.3.1.6 More homology modeling of RpiB, substrate binding structure, overview Acetivibrio thermocellus

Synonyms

EC Number Synonyms Comment Organism
5.3.1.6 D-ribose-5-phosphate isomerase
-
Acetivibrio thermocellus
5.3.1.6 RpiB
-
Acetivibrio thermocellus

Temperature Optimum [°C]

EC Number Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
5.3.1.6 65
-
assay at Acetivibrio thermocellus

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
5.3.1.6 17
-
L-ribulose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 119
-
D-talose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 322
-
L-ribose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 1506
-
L-allose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 1822
-
L-tagatose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 2347
-
D-psicose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 2682
-
D-allose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 9193
-
D-ribulose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 11880
-
D-ribose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 13420
-
L-talose in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 39530
-
D-ribulose 5-phosphate in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 39530
-
D-ribulose 5-phosphate pH 7.5, 65°C, recombinant enzyme Acetivibrio thermocellus
5.3.1.6 52000
-
D-ribose 5-phosphate in 50 mM Tris-HCl buffer (pH 7.5), at 65°C Acetivibrio thermocellus
5.3.1.6 52000
-
D-ribose 5-phosphate pH 7.5, 65°C, recombinant enzyme Acetivibrio thermocellus

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
5.3.1.6 7.5
-
assay at Acetivibrio thermocellus

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
5.3.1.6 2589
-
D-ribulose 5-phosphate pH 7.5, 65°C, recombinant enzyme Acetivibrio thermocellus
5.3.1.6 3029
-
D-ribose 5-phosphate pH 7.5, 65°C, recombinant enzyme Acetivibrio thermocellus