› 2vbm

X-ray diffraction
2Å resolution

Tailspike protein of bacteriophage Sf6 complexed with tetrasaccharide

Released:
DOI: 10.2210/pdb2vbm/pdb
PDB entry 2vbm coloured by chain, front view.
PDB entry 2vbm coloured by chain, side view.
PDB entry 2vbm coloured by chain, top view.
Source organism: Shigella virus Sf6
Primary publication:
An intersubunit active site between supercoiled parallel beta helices in the trimeric tailspike endorhamnosidase of Shigella flexneri Phage Sf6.
Müller JJ, Barbirz S, Heinle K, Freiberg A, Seckler R, Heinemann U
Structure 16 766-75 (2008)
PMID: 18462681

Function and Biology Details

Biochemical function:
  • not assigned
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-195029 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Tail spike protein Chain: A
Molecule details ›
Chain: A
Length: 514 amino acids
Theoretical weight: 55.03 KDa
Source organism: Shigella virus Sf6
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9XJP3 (Residues: 110-623; Coverage: 83%)
Sequence domains:
Structure domains: Single-stranded right-handed beta-helix, Pectin lyase-like

Ligands and Environments

Carbohydrate polymer : NEW Components: RAM, NAG
Carbohydrate polymer
3 bound ligands:
Ligand PO4 2 x PO4
Ligand MG 1 x MG
Ligand MN 2 x MN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: R3
Unit cell:
a: 95.358Å b: 95.358Å c: 182.765Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.192 0.19 0.232
Expression system: Escherichia coli

Quick links

Citations

8 review citations

A new era for understanding amyloid structures and disease.
Iadanza et al. (2018)
7 more

4 mentions without citation

Ecology, Structure, and Evolution of Shigella Phages.
Subramanian et al. (2020)
3 more