› 2d43

X-ray diffraction
2.8Å resolution

Crystal structure of arabinofuranosidase complexed with arabinotriose

Released:
DOI: 10.2210/pdb2d43/pdb
PDB entry 2d43 coloured by chain, front view.
PDB entry 2d43 coloured by chain, side view.
PDB entry 2d43 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: AHR
Carbohydrate polymer
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-6A
Spacegroup: P212121
Unit cell:
a: 39.482Å b: 98.75Å c: 144.473Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.201 0.199 0.248
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

2 mentions 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)
1 more