› 2ixa

X-ray diffraction
2.3Å resolution

A-zyme, N-acetylgalactosaminidase

Released:
DOI: 10.2210/pdb2ixa/pdb
PDB entry 2ixa coloured by chain, front view.
PDB entry 2ixa coloured by chain, side view.
PDB entry 2ixa coloured by chain, top view.
Source organism: Elizabethkingia meningoseptica
Primary publication:
Bacterial glycosidases for the production of universal red blood cells.
Liu QP, Sulzenbacher G, Yuan H, Bennett EP, Pietz G, Saunders K, Spence J, Nudelman E, Levery SB, White T, Neveu JM, Lane WS, Bourne Y, Olsson ML, Henrissat B, Clausen H
Nat Biotechnol 25 454-64 (2007)
PMID: 17401360

Function and Biology Details

Reaction catalysed: 
Cleavage of non-reducing alpha-(1->3)-N-acetylgalactosamine residues from human blood group A and AB mucin glycoproteins, Forssman hapten and blood group A lacto series glycolipids
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-107404 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alpha-N-acetylgalactosaminidase Chain: A
Molecule details ›
Chain: A
Length: 444 amino acids
Theoretical weight: 50.28 KDa
Source organism: Elizabethkingia meningoseptica
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A4Q8F7 (Residues: 1-444; Coverage: 100%)
Gene name: nagA
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand NAD 1 x NAD
2 bound ligands:
Ligand MRD 2 x MRD
Ligand MPD 2 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P6522
Unit cell:
a: 87.659Å b: 87.659Å c: 299.427Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.193 0.192 0.22
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

29 review citations

Glycosyltransferases: structures, functions, and mechanisms.
Lairson et al. (2008)
28 more

1 mention without citation

Structural and functional features of the NAD(P) dependent Gfo/Idh/MocA protein family oxidoreductases.
Taberman et al. (2016)