› 6byx

X-ray diffraction
2.21Å resolution

Complex structure of LOR107 mutant (R259N) with tetrasaccharide substrate

Released:
DOI: 10.2210/pdb6byx/pdb
PDB entry 6byx coloured by chain, front view.
PDB entry 6byx coloured by chain, side view.
PDB entry 6byx coloured by chain, top view.
Source organism: Alteromonas sp. LOR
Primary publication:
Structure-function analyses of a PL24 family ulvan lyase reveal key features and suggest its catalytic mechanism.
Ulaganathan T, Helbert W, Kopel M, Banin E, Cygler M
J Biol Chem 293 4026-4036 (2018)
PMID: 29382716

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-102846 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Ulvan lyase, short isoform Chains: A, B
Molecule details ›
Chains: A, B
Length: 506 amino acids
Theoretical weight: 57.52 KDa
Source organism: Alteromonas sp. LOR
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A109PTH9 (Residues: 32-528; Coverage: 100%)
Gene name: LOR_107
Sequence domains: BNR repeat-containing family member

Ligands and Environments

Carbohydrate polymer : NEW Components: 83Y, BDP, GCD
Carbohydrate polymer
3 bound ligands:
Ligand CA 4 x CA
Ligand SO4 10 x SO4
Ligand GOL 9 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08B1-1
Spacegroup: P212121
Unit cell:
a: 83.05Å b: 120.959Å c: 127.221Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.205 0.204 0.255
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

Marine Polysaccharides: Occurrence, Enzymatic Degradation and Utilization.
Bäumgen et al. (2021)
1 more

2 mentions without citation

Structure-function analyses of a PL24 family ulvan lyase reveal key features and suggest its catalytic mechanism.
Ulaganathan et al. (2018)
1 more