› 5z9t

X-ray diffraction
1.8Å resolution

a new PL6 alginate lyase complex with trisaccharide

Released:
DOI: 10.2210/pdb5z9t/pdb
PDB entry 5z9t coloured by chain, front view.
PDB entry 5z9t coloured by chain, side view.
PDB entry 5z9t coloured by chain, top view.
Source organism: Vibrio splendidus
Primary publication:
Structural insights into a novel Ca2+-independent PL-6 alginate lyase from Vibrio OU02 identify the possible subsites responsible for product distribution.
Lyu Q, Zhang K, Shi Y, Li W, Diao X, Liu W
Biochim Biophys Acta Gen Subj 1863 1167-1176 (2019)
PMID: 31004719

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-104495 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Alginate lyase Chains: A, B
Molecule details ›
Chains: A, B
Length: 536 amino acids
Theoretical weight: 59.08 KDa
Source organism: Vibrio splendidus
Expression system: Vibrio atlanticus LGP32
UniProt:
  • Canonical: A0A2S7V3I3 (Residues: 15-538; Coverage: 100%)
Gene name: BTO12_02510
Sequence domains: Chondroitinase B

Ligands and Environments

Carbohydrate polymer : NEW Components: LGU
Carbohydrate polymer
3 bound ligands:
Ligand NA 2 x NA
Ligand MLI 2 x MLI
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P31
Unit cell:
a: 106.086Å b: 106.086Å c: 101.894Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.166 0.165 0.196
Expression system: Vibrio atlanticus LGP32

Quick links

Citations

1 review citation

Bacterial alginate metabolism: an important pathway for bioconversion of brown algae.
Zhang et al. (2021)
7 other articles

7 mentions without citation

Structure Characteristics, Biochemical Properties, and Pharmaceutical Applications of Alginate Lyases.
Gao et al. (2021)
6 more