› 7bm6

X-ray diffraction
2.16Å resolution

Structure-function analysis of a new PL17 oligoalginate lyase from the marine bacterium Zobellia galactanivorans DsijT

Released:
DOI: 10.2210/pdb7bm6/pdb
PDB entry 7bm6 coloured by chain, front view.
PDB entry 7bm6 coloured by chain, side view.
PDB entry 7bm6 coloured by chain, top view.
Source organism: Zobellia galactanivorans
Primary publication:
Structure-function analysis of a new PL17 oligoalginate lyase from the marine bacterium Zobellia galactanivorans DsijT.
Jouanneau D, Klau LJ, Larocque R, Jaffrennou A, Duval G, Le Duff N, Roret T, Jeudy A, Aachmann FL, Czjzek M, Thomas F
OpenAccess logo Glycobiology 31 1364-1377 (2021)
PMID: 34184062

Function and Biology Details

Reaction catalysed: 
Eliminative cleavage of alginate to give oligosaccharides with 4-deoxy-alpha-L-erythro-hex-4-enuronosyl groups at their non-reducing ends and beta-D-mannuronate at their reducing end.
Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-514802 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Alginate lyase, family PL17 Chains: A, B
Molecule details ›
Chains: A, B
Length: 751 amino acids
Theoretical weight: 85.06 KDa
Source organism: Zobellia galactanivorans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: G0LCA3 (Residues: 1-751; Coverage: 100%)
Gene names: alyA3, zobellia_2624
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: MAV, MAW
Carbohydrate polymer
3 bound ligands:
Ligand CA 2 x CA
Ligand MG 4 x MG
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SOLEIL BEAMLINE PROXIMA 2
Spacegroup: P65
Unit cell:
a: 164.132Å b: 164.132Å c: 168.37Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.155 0.153 0.182
Expression system: Escherichia coli BL21(DE3)

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Citations

1 review citation

Structure Characteristics, Biochemical Properties, and Pharmaceutical Applications of Alginate Lyases.
Gao et al. (2021)
5 other articles