› 7wds

X-ray diffraction
1.68Å resolution

Crystal structures of MeBglD2 in complex with various saccharides

Released:
DOI: 10.2210/pdb7wds/pdb
PDB entry 7wds coloured by chain, front view.
PDB entry 7wds coloured by chain, side view.
PDB entry 7wds coloured by chain, top view.
Source organism: metagenome
Primary publication:
Crystal structure of metagenomic beta-glycosidase MeBglD2 in complex with various saccharides
Matsuzawa T, Watanabe M, Nakamichi Y, Akita H, Yaoi K
Appl. Microbiol. Biotechnol. 106 4539-4551 (2022)

Function and Biology Details

Reaction catalysed: 
Hydrolysis of terminal, non-reducing beta-D-glucosyl residues with release of beta-D-glucose
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-103422 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
beta-glucosidase Chain: A
Molecule details ›
Chain: A
Length: 458 amino acids
Theoretical weight: 52.19 KDa
Source organism: metagenome
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A1E1FFN6 (Residues: 2-455; Coverage: 100%)
Sequence domains: Glycosyl hydrolase family 1

Ligands and Environments

2 bound ligands:
Ligand XYP 2 x XYP
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL44XU
Spacegroup: I432
Unit cell:
a: 203.169Å b: 203.169Å c: 203.169Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.168 0.165 0.229
Expression system: Escherichia coli

Quick links