› 2d44

X-ray diffraction
2.3Å resolution

Crystal structure of arabinofuranosidase complexed with arabinofuranosyl-alpha-1,2-xylobiose

Released:
DOI: 10.2210/pdb2d44/pdb
PDB entry 2d44 coloured by chain, front view.
PDB entry 2d44 coloured by chain, side view.
PDB entry 2d44 coloured by chain, top view.
Source organism: Aspergillus luchuensis
Primary publication:
The family 42 carbohydrate-binding module of family 54 alpha-L-arabinofuranosidase specifically binds the arabinofuranose side chain of hemicellulose.
Miyanaga A, Koseki T, Miwa Y, Mese Y, Nakamura S, Kuno A, Hirabayashi J, Matsuzawa H, Wakagi T, Shoun H, Fushinobu S
Biochem J 399 503-11 (2006)
PMID: 16846393

Function and Biology Details

Reaction catalysed: 
Hydrolysis of terminal non-reducing alpha-L-arabinofuranoside residues in alpha-L-arabinosides
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-185582 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Alpha-L-arabinofuranosidase B Chain: A
Molecule details ›
Chain: A
Length: 482 amino acids
Theoretical weight: 50.83 KDa
Source organism: Aspergillus luchuensis
Expression system: Komagataella pastoris
UniProt:
  • Canonical: Q8NK89 (Residues: 19-499; Coverage: 100%)
Gene names: AKAW_08685, abfB
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: XYS, AHR
Carbohydrate polymer
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P212121
Unit cell:
a: 39.53Å b: 98.748Å c: 143.946Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.205 0.203 0.25
Expression system: Komagataella pastoris

Quick links

Citations

7 review citations

Fungal enzyme sets for plant polysaccharide degradation.
van den Brink et al. (2011)
6 more

1 mention without citation

The family 42 carbohydrate-binding module of family 54 alpha-L-arabinofuranosidase specifically binds the arabinofuranose side chain of hemicellulose.
Miyanaga et al. (2006)