› 6phv

X-ray diffraction
2.1Å resolution

SpAga galactose product complex structure

Released:
DOI: 10.2210/pdb6phv/pdb
PDB entry 6phv coloured by chain, front view.
PDB entry 6phv coloured by chain, side view.
PDB entry 6phv coloured by chain, top view.
Source organism: Streptococcus pneumoniae TIGR4
Primary publication:
Molecular analysis of an enigmatic Streptococcus pneumoniae virulence factor: The raffinose-family oligosaccharide utilization system.
Hobbs JK, Meier EPW, Pluvinage B, Mey MA, Boraston AB
J Biol Chem 294 17197-17208 (2019)
PMID: 31591266

Function and Biology Details

Reaction catalysed: 
Hydrolysis of terminal, non-reducing alpha-D-galactose residues in alpha-D-galactosides, including galactose oligosaccharides, galactomannans and galactolipids
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-493553 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alpha-galactosidase Chain: A
Molecule details ›
Chain: A
Length: 740 amino acids
Theoretical weight: 83.97 KDa
Source organism: Streptococcus pneumoniae TIGR4
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A0H2URQ6 (Residues: 1-720; Coverage: 100%)
Gene names: SP_1898, aga
Sequence domains:

Ligands and Environments

4 bound ligands:
Ligand EDO 7 x EDO
Ligand GLA 1 x GLA
Ligand NA 1 x NA
Ligand TRS 1 x TRS
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-002
Spacegroup: I222
Unit cell:
a: 90.634Å b: 127.283Å c: 151.933Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.178 0.176 0.221
Expression system: Escherichia coli BL21(DE3)

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Citations

4 citation in other articles

α-Galactosidase and Sucrose-Kinase Relationships in a Bi-functional AgaSK Enzyme Produced by the Human Gut Symbiont Ruminococcus gnavus E1.
Lafond et al. (2020)
3 more