› 4udi

X-ray diffraction
1.8Å resolution

Crystal structure of b-1,4-mannopyranosyl-chitobiose phosphorylase at 1.85 Angstrom from unknown human gut bacteria (Uhgb_MP)

Released:
DOI: 10.2210/pdb4udi/pdb
PDB entry 4udi coloured by chain, front view.
PDB entry 4udi coloured by chain, side view.
PDB entry 4udi coloured by chain, top view.
Source organism: uncultured organism
Primary publication:
Structural bases for N-glycan processing by mannoside phosphorylase.
Ladevèze S, Cioci G, Roblin P, Mourey L, Tranier S, Potocki-Véronèse G
Acta Crystallogr D Biol Crystallogr 71 1335-46 (2015)
PMID: 26057673

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113042 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glycosidase Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 347 amino acids
Theoretical weight: 39.32 KDa
Source organism: uncultured organism
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: D9ZDQ9 (Residues: 1-327; Coverage: 100%)
Sequence domains: beta-1,4-mannooligosaccharide phosphorylase
Structure domains: Glycosyl hydrolase domain; family 43

Ligands and Environments

5 bound ligands:
Ligand PO4 6 x PO4
Ligand GOL 27 x GOL
Ligand K 6 x K
Ligand EDO 21 x EDO
Ligand PGE 3 x PGE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P212121
Unit cell:
a: 84.116Å b: 141.206Å c: 176.245Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.157 0.155 0.19
Expression system: Escherichia coli BL21

Quick links

Citations

4 review citations

Diversity of phosphorylases in glycoside hydrolase families.
Kitaoka M. (2015)
3 more

2 mentions without citation

Immunoinformatic Analysis of SARS-CoV-2 Nucleocapsid Protein and Identification of COVID-19 Vaccine Targets.
Oliveira et al. (2020)
1 more