› 5ysd

X-ray diffraction
2.1Å resolution

Crystal structure of beta-1,2-glucooligosaccharide binding protein in complex with sophorotriose

Released:
DOI: 10.2210/pdb5ysd/pdb
PDB entry 5ysd coloured by chain, front view.
PDB entry 5ysd coloured by chain, side view.
PDB entry 5ysd coloured by chain, top view.
Source organism: Listeria innocua Clip11262
Primary publication:
Structural and thermodynamic insights into β-1,2-glucooligosaccharide capture by a solute-binding protein in Listeria innocua.
Abe K, Sunagawa N, Terada T, Takahashi Y, Arakawa T, Igarashi K, Samejima M, Nakai H, Taguchi H, Nakajima M, Fushinobu S
J Biol Chem 293 8812-8828 (2018)
PMID: 29678880

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-187845 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Lin1841 protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 397 amino acids
Theoretical weight: 44.58 KDa
Source organism: Listeria innocua Clip11262
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q92AS8 (Residues: 27-414; Coverage: 99%)
Gene name: lin1841
Sequence domains: Bacterial extracellular solute-binding protein
Structure domains: Periplasmic binding protein-like II

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC, BGC
Carbohydrate polymer
2 bound ligands:
Ligand MPD 5 x MPD
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: P21
Unit cell:
a: 36.082Å b: 125.561Å c: 91.78Å
α: 90° β: 101.61° γ: 90°
R-values:
R R work R free
0.171 0.169 0.207
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

8 citation in other articles

Evolutionary adaptation in fucosyllactose uptake systems supports bifidobacteria-infant symbiosis.
Sakanaka et al. (2019)
7 more

1 mention without citation

Structural and thermodynamic insights into β-1,2-glucooligosaccharide capture by a solute-binding protein in Listeria innocua.
Abe et al. (2018)