› 7o84

X-ray diffraction
2.18Å resolution

Structure of the PL6 family alginate lyase Pedsa0632 from Pseudopedobacter saltans in complex with substrate

Released:
DOI: 10.2210/pdb7o84/pdb
PDB entry 7o84 coloured by chain, front view.
PDB entry 7o84 coloured by chain, side view.
PDB entry 7o84 coloured by chain, top view.
Source organism: Pseudopedobacter saltans DSM 12145
Primary publication:
Exploring molecular determinants of polysaccharide lyase family 6-1 enzyme activity.
Violot S, Galisson F, Carrique L, Jugnarain V, Conchou L, Robert X, Thureau A, Helbert W, Aghajari N, Ballut L
Glycobiology 31 1557-1570 (2021)
PMID: 34245266

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-123271 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Poly(Beta-D-mannuronate) lyase Chains: A, B
Molecule details ›
Chains: A, B
Length: 426 amino acids
Theoretical weight: 47.45 KDa
Source organism: Pseudopedobacter saltans DSM 12145
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: F0S7Y7 (Residues: 23-448; Coverage: 100%)
Gene name: Pedsa_0632
Sequence domains: Chondroitinase B

Ligands and Environments

Carbohydrate polymer : NEW Components: LGU, MAW
Carbohydrate polymer
Carbohydrate polymer : NEW Components: LGU, MAW
Carbohydrate polymer
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P21
Unit cell:
a: 81.182Å b: 47.583Å c: 116.2Å
α: 90° β: 98.25° γ: 90°
R-values:
R R work R free
0.231 0.228 0.286
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 citation in other articles

Characterization of degradation patterns and enzymatic properties of a novel alkali-resistant alginate lyase AlyRm1 from Rubrivirga marina.
Zheng et al. (2023)
2 more