› 6k0s

X-ray diffraction
1.53Å resolution

Catalytic domain of GH87 alpha-1,3-glucanase D1069A in complex with nigerose

Released:
DOI: 10.2210/pdb6k0s/pdb
PDB entry 6k0s coloured by chain, front view.
PDB entry 6k0s coloured by chain, side view.
PDB entry 6k0s coloured by chain, top view.
Source organism: Paenibacillus glycanilyticus
Primary publication:
Structural insights into substrate recognition and catalysis by glycoside hydrolase family 87 α-1,3-glucanase from Paenibacillus glycanilyticus FH11.
Itoh T, Intuy R, Suyotha W, Hayashi J, Yano S, Makabe K, Wakayama M, Hibi T
FEBS J 287 2524-2543 (2020)
PMID: 31788942

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-100402 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Alpha-1,3-glucanase Chain: A
Molecule details ›
Chain: A
Length: 573 amino acids
Theoretical weight: 61.94 KDa
Source organism: Paenibacillus glycanilyticus
Expression system: Brevibacillus
UniProt:
  • Canonical: A0A068PS59 (Residues: 720-1287; Coverage: 45%)
Gene name: agl

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: GLC, BGC
Carbohydrate polymer
3 bound ligands:
Ligand SO4 5 x SO4
Ligand CA 1 x CA
Ligand ACY 2 x ACY
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL38B1
Spacegroup: P43212
Unit cell:
a: 132.557Å b: 132.557Å c: 76.179Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.158 0.157 0.175
Expression system: Brevibacillus

Quick links

Citations

5 citation in other articles

The structure of a family 110 glycoside hydrolase provides insight into the hydrolysis of α-1,3-galactosidic linkages in λ-carrageenan and blood group antigens.
McGuire et al. (2020)
4 more

1 mention without citation

Structural insights into substrate recognition and catalysis by glycoside hydrolase family 87 α-1,3-glucanase from Paenibacillus glycanilyticus FH11.
Itoh et al. (2020)