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Literature summary for 3.2.1.55 extracted from

  • Siguier, B.; Haon, M.; Nahoum, V.; Marcellin, M.; Burlet-Schiltz, O.; Coutinho, P.M.; Henrissat, B.; Mourey, L.; ODonohue, M.J.; Berrin, J.G.; Tranier, S.; Dumon, C.
    First structural insights into alpha-L-arabinofuranosidases from the two GH62 glycoside hydrolase subfamilies (2014), J. Biol. Chem., 289, 5261-5273.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

Cloned (Comment) Organism
expression of His6-tagged enzyme in Pichia pastoris strain X33 Podospora anserina
gene UM04309.1, expression of His6-tagged enzyme in Pichia pastoris strain X33 Ustilago maydis

Crystallization (Commentary)

Crystallization (Comment) Organism
purified recombinant His-tagged enzyme free or complexed with cellotriose, method screening and optimization, hanging-drop vapor-diffusion method is chosen, mixing of equal volumes of 18 mg/ml protein in 50 mM sodium acetate, pH 5.0, and 50 mM NaCl, with reservoir solution containing 25% w/v PEG 4000, 0.2 M calcium chloride, and 0.1 M Tris, pH 8.5, 1 week, 12°C, crystal soaking in ligand solution, X-ray diffraction structure determination and analysis at 1.44-1.85 A resolution, molecular replacement method Podospora anserina
purified recombinant His-tagged enzyme free or complexed with sulfur-SAD or L-arabinose, method screening and optimization, hanging-drop vapor-diffusion method is chosen, mixing of equal volumes of 18 mg/ml protein in 50 mM sodium acetate, pH 5.0, and 50 mM NaCl, with reservoir solution containing 20% w/v PEG 3350 and 0.2 M sodium phosphate, 6 days, 12°C, soaking of crystals in ligand solution, X-ray diffraction structure determination and analysis at 1.0-1.75 A resolution, solved by the sulfur-SAD phasing method Ustilago maydis

Inhibitors

Inhibitors Comment Organism Structure
cellohexaose
-
Podospora anserina
additional information no inhibition by cellohexaose Ustilago maydis

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
additional information
-
additional information Michaelis-Menten kinetics Podospora anserina
additional information
-
additional information Michaelis-Menten kinetics Ustilago maydis
6.1
-
4-nitrophenyl-alpha-L-arabinofuranoside pH 5.0, 37°C Podospora anserina
7.5
-
4-nitrophenyl-alpha-L-arabinofuranoside pH 5.0, 37°C Ustilago maydis

Molecular Weight [Da]

Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
67840
-
x * 67840, His-tagged enzyme, sequence calculation Ustilago maydis
99350
-
x * 99350, His-tagged enzyme, sequence calculation Podospora anserina

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
L-arabinoxylan + H2O Podospora anserina the enzyme efficiently removes the alpha-L-arabinosyl substituents from arabinoxylan ?
-
?
L-arabinoxylan + H2O Ustilago maydis the enzyme efficiently removes the alpha-L-arabinosyl substituents from arabinoxylan ?
-
?
L-arabinoxylan + H2O Ustilago maydis BRFM1093 the enzyme efficiently removes the alpha-L-arabinosyl substituents from arabinoxylan ?
-
?

Organism

Organism UniProt Comment Textmining
Podospora anserina E2GHW5
-
-
Ustilago maydis A0A0D1BZQ4 gene UM04309.1
-
Ustilago maydis BRFM1093 A0A0D1BZQ4 gene UM04309.1
-

Posttranslational Modification

Posttranslational Modification Comment Organism
glycoprotein N-deglycosylation by glycosidase Endo-Hf Podospora anserina

Purification (Commentary)

Purification (Comment) Organism
recombinant His6-tagged enzyme from Pichia pastoris strain X33 Podospora anserina
recombinant His6-tagged enzyme from Pichia pastoris strain X33 Ustilago maydis

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
4-nitrophenyl alpha-L-arabinofuranoside + H2O
-
Podospora anserina 4-nitrophenol + L-arabinofuranose
-
?
4-nitrophenyl alpha-L-arabinofuranoside + H2O
-
Ustilago maydis 4-nitrophenol + L-arabinofuranose
-
?
4-nitrophenyl alpha-L-arabinofuranoside + H2O
-
Ustilago maydis BRFM1093 4-nitrophenol + L-arabinofuranose
-
?
L-arabinoxylan + H2O the enzyme efficiently removes the alpha-L-arabinosyl substituents from arabinoxylan Podospora anserina ?
-
?
L-arabinoxylan + H2O the enzyme efficiently removes the alpha-L-arabinosyl substituents from arabinoxylan Ustilago maydis ?
-
?
L-arabinoxylan + H2O the enzyme efficiently removes the alpha-L-arabinosyl substituents from arabinoxylan Ustilago maydis BRFM1093 ?
-
?

Subunits

Subunits Comment Organism
? x * 67840, His-tagged enzyme, sequence calculation Ustilago maydis
? x * 99350, His-tagged enzyme, sequence calculation Podospora anserina
More three-dimensional structure, overview Podospora anserina
More three-dimensional structure, overview Ustilago maydis

Synonyms

Synonyms Comment Organism
PaAbf62A
-
Podospora anserina
UmAbf62A
-
Ustilago maydis

Temperature Optimum [°C]

Temperature Optimum [°C] Temperature Optimum Maximum [°C] Comment Organism
37
-
assay at Podospora anserina
37
-
assay at Ustilago maydis

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.039
-
4-nitrophenyl-alpha-L-arabinofuranoside pH 5.0, 37°C Ustilago maydis
0.38
-
4-nitrophenyl-alpha-L-arabinofuranoside pH 5.0, 37°C Podospora anserina

pH Optimum

pH Optimum Minimum pH Optimum Maximum Comment Organism
5
-
assay at Podospora anserina
5
-
assay at Ustilago maydis

Ki Value [mM]

Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
3.4
-
cellohexaose pH 5.0, 37°C Podospora anserina

General Information

General Information Comment Organism
evolution the enzyme belongs to the family 62 glycoside hydrolase, GH62, phylogenetic analysis. The overall three-dimensional structure of PaAbf62A reveals a five-bladed beta-propeller fold that confirms its predicted classification into clan GH-F together with GH43 alpha-L-arabinofuranosidases, structure-function relationships within the GH62 family, overview Podospora anserina
evolution the enzyme belongs to the family 62 glycoside hydrolase, GH62, phylogenetic analysis. The overall three-dimensional structure of PaAbf62A reveals a five-bladed beta-propeller fold that confirms its predicted classification into clan GH-F together with GH43 alpha-L-arabinofuranosidases, structure-function relationships within the GH62 family, overview Ustilago maydis

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
0.005
-
4-nitrophenyl-alpha-L-arabinofuranoside pH 5.0, 37°C Ustilago maydis
0.062
-
4-nitrophenyl-alpha-L-arabinofuranoside pH 5.0, 37°C Podospora anserina