› 7zio

X-ray diffraction
1.75Å resolution

JC Polyomavirus VP1 in complex with 6'-Sialyllactose glycomacromolecules (aromatic linker)

Released:
DOI: 10.2210/pdb7zio/pdb
PDB entry 7zio coloured by chain, front view.
PDB entry 7zio coloured by chain, side view.
PDB entry 7zio coloured by chain, top view.
Source organism: JC polyomavirus
Primary publication:
Synthesis of Homo- and Heteromultivalent Fucosylated and Sialylated Oligosaccharide Conjugates via Preactivated N-Methyloxyamine Precision Macromolecules and Their Binding to Polyomavirus Capsid Proteins.
Konietzny PB, Freytag J, Feldhof MI, Müller JC, Ohl D, Stehle T, Hartmann L
Biomacromolecules 23 5273-5284 (2022)
PMID: 36398945

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-136562 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Major capsid protein VP1 Chains: AAA, BBB, CCC, DDD, EEE
Molecule details ›
Chains: AAA, BBB, CCC, DDD, EEE
Length: 272 amino acids
Theoretical weight: 30.08 KDa
Source organism: JC polyomavirus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P03089 (Residues: 23-290; Coverage: 76%)
Sequence domains: Polyomavirus coat protein

Ligands and Environments

Carbohydrate polymer : NEW Components: BGC, GAL, SIA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: GAL, SIA
Carbohydrate polymer
4 bound ligands:
Ligand EDO 9 x EDO
Ligand GOL 1 x GOL
Ligand PEG 1 x PEG
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: C2
Unit cell:
a: 150.02Å b: 97.258Å c: 129.075Å
α: 90° β: 110.298° γ: 90°
R-values:
R R work R free
0.184 0.183 0.217
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 citations in other articles

Step-Growth Glycopolymers with a Defined Tacticity for Selective Carbohydrate-Lectin Recognition.
Becker et al. (2023)