› 7xtf

X-ray diffraction
1.73Å resolution

Crystal Structure of PL-5 family polysaccharide lyase PanPL-Y226F mutant from Pandoraea apista in apo form at pH5.5

Released:
DOI: 10.2210/pdb7xtf/pdb
PDB entry 7xtf coloured by chain, front view.
PDB entry 7xtf coloured by chain, side view.
PDB entry 7xtf coloured by chain, top view.
Source organism: Pandoraea apista
Primary publication:
Distinct Modes of Hidden Structural Dynamics in the Functioning of an Allosteric Polysaccharide Lyase.
Dash P, Acharya R
OpenAccess logo ACS Cent Sci 8 933-947 (2022)
PMID: 35912344

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:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-105373 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alginate lyase domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 367 amino acids
Theoretical weight: 40.64 KDa
Source organism: Pandoraea apista
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A5E5PAL9 (Residues: 6-343; Coverage: 100%)
Gene name: PAP18089_04690
Sequence domains: Alginate lyase

Ligands and Environments

2 bound ligands:
Ligand EDO 1 x EDO
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID30B
Spacegroup: P212121
Unit cell:
a: 37.073Å b: 85.682Å c: 91.565Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.182 0.18 0.222
Expression system: Escherichia coli

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Citations

1 citations in other articles

Characterization of a Novel Polysaccharide Lyase Family 5 Alginate Lyase with PolyM Substrate Specificity.
Zhou et al. (2022)