› 3gvk

X-ray diffraction
1.84Å resolution

Crystal structure of endo-neuraminidase NF mutant

Released:
DOI: 10.2210/pdb3gvk/pdb
PDB entry 3gvk coloured by chain, front view.
PDB entry 3gvk coloured by chain, side view.
PDB entry 3gvk coloured by chain, top view.
Source organism: Escherichia phage K1F
Primary publication:
Structural basis for the recognition and cleavage of polysialic acid by the bacteriophage K1F tailspike protein EndoNF.
Schulz EC, Schwarzer D, Frank M, Stummeyer K, Mühlenhoff M, Dickmanns A, Gerardy-Schahn R, Ficner R
J Mol Biol 397 341-51 (2010)
PMID: 20096705

Function and Biology Details

Reaction catalysed: 
Endohydrolysis of (2->8)-alpha-sialosyl linkages in oligo- or poly(sialic) acids
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170081 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Mature tail spike protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 670 amino acids
Theoretical weight: 74.48 KDa
Source organism: Escherichia phage K1F
Expression system: Escherichia coli
UniProt:
  • Canonical: Q04830 (Residues: 246-910; Coverage: 63%)
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: SLB, SIA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: SLB, SIA
Carbohydrate polymer
1 bound ligand:
Ligand NA 3 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X13
Spacegroup: P212121
Unit cell:
a: 90.4Å b: 153.7Å c: 157.8Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.266 0.265 0.282
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Sialic acids in the brain: gangliosides and polysialic acid in nervous system development, stability, disease, and regeneration.
Schnaar et al. (2014)
7 more

3 mentions without citation

Three-dimensional reconstructions of the bacteriophage CUS-3 virion reveal a conserved coat protein I-domain but a distinct tailspike receptor-binding domain.
Parent et al. (2014)
2 more